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Sample records for acid-sensing ion channels

  1. Acid-sensing ion channels and migraine

    Yu-qi KANG

    2015-09-01

    Full Text Available Acid-sensing ion channels (ASICs are ligand-gated ion channels that are activated by extracellular protons (H+, which belong to epithelial sodium channels/degenerin (ENaC/DEG superfamily. ASICs are widely distributed in central nervous system, peripheral nervous system, digestive system and some tumor tissues. Different ASIC subunits play important roles in various pathophysiological processes such as touch, sour taste, learning and memory, including inflammation, ischemic stroke, pain, learning and memory decline, epilepsy, multiple sclerosis (MS, migraine, irritable bowel syndrome and tumor. Research over the last 2 decades has achieved substantial advances in migraine pathophysiology. It is now largely accepted that inflammatory pathways play a key role and three main events seem to take place: cortical spreading depression (CSD, activation of the trigeminovascular system (i.e. dural nociceptors, peripheral and central sensitization of this pain pathway. However, the exact mechanisms that link these three events to each other and to inflammation have so far remained to be studied. This article takes an overview of newly research advances in structure, distribution and the relationship with migraine of ASICs.  DOI: 10.3969/j.issn.1672-6731.2015.09.013

  2. Amino acid-sensing ion channels in plants

    Spalding, Edgar P.

    2014-08-12

    The title of our project is “Amino acid-sensing ion channels in plants”. Its goals are two-fold: to determine the molecular functions of glutamate receptor-like (GLR) proteins, and to elucidate their biological roles (physiological or developmental) in plants. Here is our final technical report. We were highly successful in two of the three aims, modestly successful in the third.

  3. Receptor for protons: First observations on Acid Sensing Ion Channels.

    Krishtal, Oleg

    2015-07-01

    The history of ASICs began in 1980 with unexpected observation. The concept of highly selective Na(+) current gated by specific receptors for protons was not easily accepted. It took 16 years to get these receptor/channels cloned and start a new stage in their investigation. "The receptor for protons" became ASIC comprising under this name a family of receptor/channels ubiquitous for mammalian nervous system, both peripheral and central. The role of ASICs as putative nociceptors was suggested almost immediately after their discovery. This role subsequently was proven in many forms of pain-related phenomena. Many other functions of ASICs have been also found or primed for speculations both in physiology and in disease. Despite the width of field and strength of efforts, numerous basic questions are to be answered before we understand how the local changes in pH in the nervous tissue transform into electric and messenger signaling via ASICs as transducers. This article is part of the Special Issue entitled 'Acid-Sensing Ion Channels in the Nervous System'. PMID:25582296

  4. Functional modifications of acid-sensing ion channels by ligand-gated chloride channels.

    Xuanmao Chen

    Full Text Available Together, acid-sensing ion channels (ASICs and epithelial sodium channels (ENaC constitute the majority of voltage-independent sodium channels in mammals. ENaC is regulated by a chloride channel, the cystic fibrosis transmembrane conductance regulator (CFTR. Here we show that ASICs were reversibly inhibited by activation of GABA(A receptors in murine hippocampal neurons. This inhibition of ASICs required opening of the chloride channels but occurred with both outward and inward GABA(A receptor-mediated currents. Moreover, activation of the GABA(A receptors modified the pharmacological features and kinetic properties of the ASIC currents, including the time course of activation, desensitization and deactivation. Modification of ASICs by open GABA(A receptors was also observed in both nucleated patches and outside-out patches excised from hippocampal neurons. Interestingly, ASICs and GABA(A receptors interacted to regulate synaptic plasticity in CA1 hippocampal slices. The activation of glycine receptors, which are similar to GABA(A receptors, also modified ASICs in spinal neurons. We conclude that GABA(A receptors and glycine receptors modify ASICs in neurons through mechanisms that require the opening of chloride channels.

  5. Prokineticin 2 potentiates acid-sensing ion channel activity in rat dorsal root ganglion neurons

    Qiu Chun-Yu

    2012-05-01

    Full Text Available Abstract Background Prokineticin 2 (PK2 is a secreted protein and causes potent hyperalgesia in vivo, and is therefore considered to be a new pronociceptive mediator. However, the molecular targets responsible for the pronociceptive effects of PK2 are still poorly understood. Here, we have found that PK2 potentiates the activity of acid-sensing ion channels in the primary sensory neurons. Methods In the present study, experiments were performed on neurons freshly isolated from rat dorsal root ganglion by using whole-cell patch clamp and voltage-clamp recording techniques. Results PK2 dose-dependently enhanced proton-gated currents with an EC50 of 0.22 ± 0.06 nM. PK2 shifted the proton concentration-response curve upwards, with a 1.81 ± 0.11 fold increase of the maximal current response. PK2 enhancing effect on proton-gated currents was completely blocked by PK2 receptor antagonist. The potentiation was also abolished by intracellular dialysis of GF109203X, a protein kinase C inhibitor, or FSC-231, a protein interacting with C-kinase 1 inhibitor. Moreover, PK2 enhanced the acid-evoked membrane excitability of rat dorsal root ganglion neurons and caused a significant increase in the amplitude of the depolarization and the number of spikes induced by acid stimuli. Finally, PK2 exacerbated nociceptive responses to the injection of acetic acid in rats. Conclusion These results suggest that PK2 increases the activity of acid-sensing ion channels via the PK2 receptor and protein kinase C-dependent signal pathways in rat primary sensory neurons. Our findings support that PK2 is a proalgesic factor and its signaling likely contributes to acidosis-evoked pain by sensitizing acid-sensing ion channels.

  6. Structural plasticity and dynamic selectivity of acid-sensing ion channel-spider toxin complexes

    Baconguis, Isabelle; Gouaux, Eric [Oregon HSU

    2012-07-29

    Acid-sensing ion channels (ASICs) are voltage-independent, amiloride-sensitive channels involved in diverse physiological processes ranging from nociception to taste. Despite the importance of ASICs in physiology, we know little about the mechanism of channel activation. Here we show that psalmotoxin activates non-selective and Na+-selective currents in chicken ASIC1a at pH7.25 and 5.5, respectively. Crystal structures of ASIC1a–psalmotoxin complexes map the toxin binding site to the extracellular domain and show how toxin binding triggers an expansion of the extracellular vestibule and stabilization of the open channel pore. At pH7.25 the pore is approximately 10Å in diameter, whereas at pH5.5 the pore is largely hydrophobic and elliptical in cross-section with dimensions of approximately 5 by 7Å, consistent with a barrier mechanism for ion selectivity. These studies define mechanisms for activation of ASICs, illuminate the basis for dynamic ion selectivity and provide the blueprints for new therapeutic agents.

  7. Identification of acid-sensing ion channels in adenoid cystic carcinomas

    Tissue acidosis is an important feature of tumor. The response of adenoid cystic carcinoma (ACC) cells to acidic solution was studied using whole-cell patch-clamp recording in the current study. An inward, amiloride-sensitive Na+ current was identified in cultured ACC-2 cells while not in normal human salivary gland epithelial cells. Electrophysiological and pharmacological properties of the currents suggest that heteromeric acid-sensing ion channels (ASICs) containing 2a and 3 may be responsible for the proton-induced currents in the majority of ACC-2 cells. Consistent with it, analyses of RT-PCR and Western blotting demonstrated the presences of ASIC2a and 3 in ACC-2 cells. Furthermore, we observed the enhanced expression of ASIC2a and 3 in the sample of ACC tissues. These results indicate that the functional expression of ASICs is characteristic feature of ACC cells

  8. Expression and activity of acid-sensing ion channels in the mouse anterior pituitary.

    Jianyang Du

    Full Text Available Acid sensing ion channels (ASICs are proton-gated cation channels that are expressed in the nervous system and play an important role in fear learning and memory. The function of ASICs in the pituitary, an endocrine gland that contributes to emotions, is unknown. We sought to investigate which ASIC subunits were present in the pituitary and found mRNA expression for all ASIC isoforms, including ASIC1a, ASIC1b, ASIC2a, ASIC2b, ASIC3 and ASIC4. We also observed acid-evoked ASIC-like currents in isolated anterior pituitary cells that were absent in mice lacking ASIC1a. The biophysical properties and the responses to PcTx1, amiloride, Ca2+ and Zn2+ suggested that ASIC currents were mediated predominantly by heteromultimeric channels that contained ASIC1a and ASIC2a or ASIC2b. ASIC currents were also sensitive to FMRFamide (Phe-Met-Arg-Phe amide, suggesting that FMRFamide-like compounds might endogenously regulate pituitary ASICs. To determine whether ASICs might regulate pituitary cell function, we applied low pH and found that it increased the intracellular Ca2+ concentration. These data suggest that ASIC channels are present and functionally active in anterior pituitary cells and may therefore influence their function.

  9. Role of acid-sensing ion channel 3 in sub-acute-phase inflammation

    Chen Chien-Ju

    2009-01-01

    Full Text Available Abstract Background Inflammation-mediated hyperalgesia involves tissue acidosis and sensitization of nociceptors. Many studies have reported increased expression of acid-sensing ion channel 3 (ASIC3 in inflammation and enhanced ASIC3 channel activity with pro-inflammatory mediators. However, the role of ASIC3 in inflammation remains inconclusive because of conflicting results generated from studies of ASIC3 knockout (ASIC3-/- or dominant-negative mutant mice, which have shown normal, decreased or increased hyperalgesia during inflammation. Results Here, we tested whether ASIC3 plays an important role in inflammation of subcutaneous tissue of paw and muscle in ASIC3-/- mice induced by complete Freund's adjuvant (CFA or carrageenan by investigating behavioral and pathological responses, as well as the expression profile of ion channels. Compared with the ASIC3+/+ controls, ASIC3-/- mice showed normal thermal and mechanical hyperalgesia with acute (4-h intraplantar CFA- or carrageenan-induced inflammation, but the hyperalgesic effects in the sub-acute phase (1–2 days were milder in all paradigms except for thermal hyperalgesia with CFA-induced inflammation. Interestingly, carrageenan-induced primary hyperalgesia was accompanied by an ASIC3-dependent Nav1.9 up-regulation and increase of tetrodotoxin (TTX-resistant sodium currents. CFA-inflamed muscle did not evoke hyperalgesia in ASIC3-/- or ASIC3+/+ mice, whereas carrageenan-induced inflammation in muscle abolished mechanical hyperalgesia in ASIC3-/- mice, as previously described. However, ASIC3-/- mice showed attenuated pathological features such as less CFA-induced granulomas and milder carrageenan-evoked vasculitis as compared with ASIC3+/+ mice. Conclusion We provide a novel finding that ASIC3 participates in the maintenance of sub-acute-phase primary hyperalgesia in subcutaneous inflammation and mediates the process of granuloma formation and vasculitis in intramuscular inflammation.

  10. ASIC3, an acid-sensing ion channel, is expressed in metaboreceptive sensory neurons

    Fierro Leonardo

    2005-11-01

    Full Text Available Abstract Background ASIC3, the most sensitive of the acid-sensing ion channels, depolarizes certain rat sensory neurons when lactic acid appears in the extracellular medium. Two functions have been proposed for it: 1 ASIC3 might trigger ischemic pain in heart and muscle; 2 it might contribute to some forms of touch mechanosensation. Here, we used immunocytochemistry, retrograde labelling, and electrophysiology to ask whether the distribution of ASIC3 in rat sensory neurons is consistent with either of these hypotheses. Results Less than half (40% of dorsal root ganglion sensory neurons react with anti-ASIC3, and the population is heterogeneous. They vary widely in cell diameter and express different growth factor receptors: 68% express TrkA, the receptor for nerve growth factor, and 25% express TrkC, the NT3 growth factor receptor. Consistent with a role in muscle nociception, small ( Conclusion Our data indicates that: 1 ASIC3 is expressed in a restricted population of nociceptors and probably in some non-nociceptors; 2 co-expression of ASIC3 and CGRP, and the absence of P2X3, are distinguishing properties of a class of sensory neurons, some of which innervate blood vessels. We suggest that these latter afferents may be muscle metaboreceptors, neurons that sense the metabolic state of muscle and can trigger pain when there is insufficient oxygen.

  11. Acid-sensing ion channels regulate spontaneous inhibitory activity in the hippocampus: possible implications for epilepsy.

    Ievglevskyi, O; Isaev, D; Netsyk, O; Romanov, A; Fedoriuk, M; Maximyuk, O; Isaeva, E; Akaike, N; Krishtal, O

    2016-08-01

    Acid-sensing ion channels (ASICs) play an important role in numerous functions in the central and peripheral nervous systems ranging from memory and emotions to pain. The data correspond to a recent notion that each neuron and many glial cells of the mammalian brain express at least one member of the ASIC family. However, the mechanisms underlying the involvement of ASICs in neuronal activity are poorly understood. However, there are two exceptions, namely, the straightforward role of ASICs in proton-based synaptic transmission in certain brain areas and the role of the Ca(2+)-permeable ASIC1a subtype in ischaemic cell death. Using a novel orthosteric ASIC antagonist, we have found that ASICs specifically control the frequency of spontaneous inhibitory synaptic activity in the hippocampus. Inhibition of ASICs leads to a strong increase in the frequency of spontaneous inhibitory postsynaptic currents. This effect is presynaptic because it is fully reproducible in single synaptic boutons attached to isolated hippocampal neurons. In concert with this observation, inhibition of the ASIC current diminishes epileptic discharges in a low Mg(2+) model of epilepsy in hippocampal slices and significantly reduces kainate-induced discharges in the hippocampus in vivo Our results reveal a significant novel role for ASICs.This article is part of the themed issue 'Evolution brings Ca(2+) and ATP together to control life and death'. PMID:27377725

  12. Potentiation of acid-sensing ion channel activity by peripheral group I metabotropic glutamate receptor signaling.

    Gan, Xiong; Wu, Jing; Ren, Cuixia; Qiu, Chun-Yu; Li, Yan-Kun; Hu, Wang-Ping

    2016-05-01

    Glutamate activates peripheral group I metabotropic glutamate receptors (mGluRs) and contributes to inflammatory pain. However, it is still not clear the mechanisms are involved in group I mGluR-mediated peripheral sensitization. Herein, we report that group I mGluRs signaling sensitizes acid-sensing ion channels (ASICs) in dorsal root ganglion (DRG) neurons and contributes to acidosis-evoked pain. DHPG, a selective group I mGluR agonist, can potentiate the functional activity of ASICs, which mediated the proton-induced events. DHPG concentration-dependently increased proton-gated currents in DRG neurons. It shifted the proton concentration-response curve upwards, with a 47.3±7.0% increase of the maximal current response to proton. Group I mGluRs, especially mGluR5, mediated the potentiation of DHPG via an intracellular cascade. DHPG potentiation of proton-gated currents disappeared after inhibition of intracellular Gq/11 proteins, PLCβ, PKC or PICK1 signaling. Moreover, DHPG enhanced proton-evoked membrane excitability of rat DRG neurons and increased the amplitude of the depolarization and the number of spikes induced by acid stimuli. Finally, peripherally administration of DHPG dose-dependently exacerbated nociceptive responses to intraplantar injection of acetic acid in rats. Potentiation of ASIC activity by group I mGluR signaling in rat DRG neurons revealed a novel peripheral mechanism underlying group I mGluRs involvement in hyperalgesia. PMID:26946972

  13. Prolactin potentiates the activity of acid-sensing ion channels in female rat primary sensory neurons.

    Liu, Ting-Ting; Qu, Zu-Wei; Ren, Cuixia; Gan, Xiong; Qiu, Chun-Yu; Hu, Wang-Ping

    2016-04-01

    Prolactin (PRL) is a polypeptide hormone produced and released from the pituitary and extrapituitary tissues. It regulates activity of nociceptors and causes hyperalgesia in pain conditions, but little is known the molecular mechanism. We report here that PRL can exert a potentiating effect on the functional activity of acid-sensing ion channels (ASICs), key sensors for extracellular protons. First, PRL dose-dependently increased the amplitude of ASIC currents with an EC50 of (5.89 ± 0.28) × 10(-8) M. PRL potentiation of ASIC currents was also pH dependent. Second, PRL potentiation of ASIC currents was blocked by Δ1-9-G129R-hPRL, a PRL receptor antagonist, and removed by intracellular dialysis of either protein kinase C inhibitor GF109203X, protein interacting with C-kinase 1(PICK1) inhibitor FSC-231, or PI3K inhibitor AS605240. Third, PRL altered acidosis-evoked membrane excitability of DRG neurons and caused a significant increase in the amplitude of the depolarization and the number of spikes induced by acid stimuli. Four, PRL exacerbated nociceptive responses to injection of acetic acid in female rats. Finally, PRL displayed a stronger effect on ASIC mediated-currents and nociceptive behavior in intact female rats than OVX female and male rats and thus modulation of PRL may be gender-dependent. These results suggest that PRL up-regulates the activity of ASICs and enhances ASIC mediated nociceptive responses in female rats, which reveal a novel peripheral mechanism underlying PRL involvement in hyperalgesia. PMID:26188144

  14. Interaction of Acid-sensing Ion Channel (ASIC) 1 with the Tarantula Toxin Psalmotoxin 1 is State Dependent

    Chen, Xuanmao; Kalbacher, Hubert; Gründer, Stefan

    2006-01-01

    Acid-sensing ion channels (ASICs) are Na+ channels gated by extracellular H+. Six ASIC subunits that are expressed in neurons have been characterized. The tarantula toxin psalmotoxin 1 has been reported to potently and specifically inhibit homomeric ASIC1a and has been useful to characterize ASICs in neurons. Recently we have shown that psalmotoxin 1 inhibits ASIC1a by increasing its apparent affinity for H+. However, the mechanism by which PcTx1 increases the apparent H+ affinity remained un...

  15. A Conformation Change in the Extracellular Domain that Accompanies Desensitization of Acid-sensing Ion Channel (ASIC) 3

    Cushman, Kenneth A.; Marsh-Haffner, Josephine; Adelman, John P.; McCleskey, Edwin W.

    2007-01-01

    Acid-sensing ion channels (ASICs) are thought to trigger some forms of acid-induced pain and taste, and to contribute to stroke-induced neural damage. After activation by low extracellular pH, different ASICs undergo desensitization on time scales from 0.1 to 10 s. Consistent with a substantial conformation change, desensitization slows dramatically when temperature drops (Askwith, C.C., C.J. Benson, M.J. Welsh, and P.M. Snyder. 2001. PNAS. 98:6459–6463). The nature of this conformation chang...

  16. The Human Acid-Sensing Ion Channel ASIC1a: Evidence for a Homotetrameric Assembly State at the Cell Surface

    van Bemmelen, Miguel Xavier; Huser, Delphine; Gautschi, Ivan; Schild, Laurent

    2015-01-01

    The chicken acid-sensing ion channel ASIC1 has been crystallized as a homotrimer. We address here the oligomeric state of the functional ASIC1 in situ at the cell surface. The oligomeric states of functional ASIC1a and mutants with additional cysteines introduced in the extracellular pore vestibule were resolved on SDS-PAGE. The functional ASIC1 complexes were stabilized at the cell surface of Xenopus laevis oocytes or CHO cells either using the sulfhydryl crosslinker BMOE, or sodium tetrathi...

  17. Alterations in subcellular expression of acid-sensing ion channels in the rat forebrain following chronic amphetamine administration

    Suman, Ajay; Mehta, Bhavi; Guo, Ming-Lei; Chu, Xiang-Ping; Fibuch, Eugene E.; Mao, Li-Min; WANG, John Q.

    2010-01-01

    Acid-sensing ion channels (ASICs) are densely expressed in broad areas of mammalian brains and actively modulate synaptic transmission and a variety of neuronal activities. To explore whether ASICs are linked to addictive properties of drugs of abuse, we investigated the effect of the psychostimulant amphetamine on subcellular ASIC expression in the rat forebrain in vivo. Repeated administration of amphetamine (once daily for 7 days, 1.25 mg/kg for days 1/7, 4 mg/kg for days 2–6) induced typi...

  18. The pharmacology and therapeutic potential of small molecule inhibitors of acid-sensing ion channels in stroke intervention

    Tian-dong LENG; Zhi-gang XIONG

    2013-01-01

    In the nervous system,a decrease in extracellular pH is a common feature of various physiological and pathological processes,including synaptic transmission,cerebral ischemia,epilepsy,brain trauma,and tissue inflammation.Acid-sensing ion channels (ASICs) are proton-gated cation channels that are distributed throughout the central and peripheral nervous systems.Following the recent identification of ASICs as critical acid-sensing extracellular proton receptors,growing evidence has suggested that the activation of ASICs plays important roles in physiological processes such as nociception,mechanosensation,synaptic plasticity,learning and memory.However,the over-activation of ASICs is also linked to adverse outcomes for certain pathological processes,such as brain ischemia and multiple sclerosis.Based on the well-demonstrated role of ASlC1a activation in acidosis-mediated brain injury,small molecule inhibitors of ASIC1a may represent novel therapeutic agents for the treatment of neurological disorders,such as stroke.

  19. The Human Acid-Sensing Ion Channel ASIC1a: Evidence for a Homotetrameric Assembly State at the Cell Surface.

    van Bemmelen, Miguel Xavier; Huser, Delphine; Gautschi, Ivan; Schild, Laurent

    2015-01-01

    The chicken acid-sensing ion channel ASIC1 has been crystallized as a homotrimer. We address here the oligomeric state of the functional ASIC1 in situ at the cell surface. The oligomeric states of functional ASIC1a and mutants with additional cysteines introduced in the extracellular pore vestibule were resolved on SDS-PAGE. The functional ASIC1 complexes were stabilized at the cell surface of Xenopus laevis oocytes or CHO cells either using the sulfhydryl crosslinker BMOE, or sodium tetrathionate (NaTT). Under these different crosslinking conditions ASIC1a migrates as four distinct oligomeric states that correspond by mass to multiples of a single ASIC1a subunit. The relative importance of each of the four ASIC1a oligomers was critically dependent on the availability of cysteines in the transmembrane domain for crosslinking, consistent with the presence of ASIC1a homo-oligomers. The expression of ASIC1a monomers, trimeric or tetrameric concatemeric cDNA constructs resulted in functional channels. The resulting ASIC1a complexes are resolved as a predominant tetramer over the other oligomeric forms, after stabilization with BMOE or NaTT and SDS-PAGE/western blot analysis. Our data identify a major ASIC1a homotetramer at the surface membrane of the cell expressing functional ASIC1a channel. PMID:26252376

  20. Expression in Pichia pastoris and characterization of APETx2, a specific inhibitor of acid sensing ion channel 3.

    Anangi, Raveendra; Chen, Chih-Cheng; Lin, Yi-Wen; Cheng, Yuan-Ren; Cheng, Chun-Ho; Chen, Yi-Chun; Chu, Yuan-Ping; Chuang, Woei-Jer

    2010-12-01

    Acid sensing ion channels (ASICs) are family of proteins predominantly present in the central and peripheral nervous system. They are known to play important roles in the pathophysiology of pain and ischemic stroke. APETx2 is a potent and selective inhibitor of ASIC3-containing channels and was isolated from sea anemone Anthopleura elegantissima. To facilitate the study on the molecular determinants of ASIC3-ligand interactions, we expressed recombinant APETx2 in the Pichia pastoris (P. pastoris) expression system and purified it to homogeneity. Recombinant APETx2 produced in P. pastoris inhibited the acid-evoked ASIC3 current with the IC(50) value of 37.3 nM. The potency of recombinant toxin is similar to that of native APETx2. The sequential assignment and structure analysis of APETx2 were obtained by 2D and 3D (15)N-edited NMR spectra. Our NMR data suggests that APETx2 produced in P. pastoris retained its native fold. The results presented here provide the first direct evidence that highly disulfide bonded peptide inhibitor of ASIC3, APETx2, can be expressed in P. pastoris with correct fold and high yield. We also showed that the R17A mutant exhibited a decrease in activity, suggesting the feasibility of the use of this expression system to study the interactions between APETx2 and ASIC3. These evidences may serve as the basis for understanding the selectivity and activity of APETx2. PMID:20813121

  1. Acid-Sensing Ion Channel 2a (ASIC2a) Promotes Surface Trafficking of ASIC2b via Heteromeric Assembly.

    Kweon, Hae-Jin; Kim, Dong-Il; Bae, Yeonju; Park, Jae-Yong; Suh, Byung-Chang

    2016-01-01

    Acid-sensing ion channels (ASICs) are proton-activated cation channels that play important roles as typical proton sensors during pathophysiological conditions and normal synaptic activities. Among the ASIC subunits, ASIC2a and ASIC2b are alternative splicing products from the same gene, ACCN1. It has been shown that ASIC2 isoforms have differential subcellular distribution: ASIC2a targets the cell surface by itself, while ASIC2b resides in the ER. However, the underlying mechanism for this differential subcellular localization remained to be further elucidated. By constructing ASIC2 chimeras, we found that the first transmembrane (TM1) domain and the proximal post-TM1 domain (17 amino acids) of ASIC2a are critical for membrane targeting of the proteins. We also observed that replacement of corresponding residues in ASIC2b by those of ASIC2a conferred proton-sensitivity as well as surface expression to ASIC2b. We finally confirmed that ASIC2b is delivered to the cell surface from the ER by forming heteromers with ASIC2a, and that the N-terminal region of ASIC2a is additionally required for the ASIC2a-dependent membrane targeting of ASIC2b. Together, our study supports an important role of ASIC2a in membrane targeting of ASIC2b. PMID:27477936

  2. In silico assessment of interaction of sea anemone toxin APETx2 and acid sensing ion channel 3

    Highlights: • We have made a reasonable model of rat ASIC3 using published structure of chicken ASIC1. • We have docked sea anemone toxin APETx2 on the model. • We have identified two putative sites for toxin binding. • We have argued for plausibility one site over the other. • We have identified the residues that are likely to be critical for APETx2–ASIC3 interaction. - Abstract: Acid sensing ion channels (ASICs) are proton-gated cation channels that are expressed throughout the nervous system and have been implicated in mediating sensory perception of noxious stimuli. Amongst the six ASIC isoforms, ASIC1a, 1b, 2a and 3 form proton-gated homomers, which differ in their activation and inactivation kinetics, expression profiles and pharmacological modulation; protons do not gate ASIC2b and ASIC4. As with many other ion channels, structure-function studies of ASICs have been greatly aided by the discovery of some toxins that act in isoform-specific ways. ASIC3 is predominantly expressed by sensory neurons of the peripheral nervous system where it acts to detect acid as a noxious stimulus and thus plays an important role in nociception. ASIC3 is the only ASIC subunit that is inhibited by the sea anemone (Anthopleura elegantissima)-derived toxin APETx2. However, the molecular mechanism by which APETx2 interacts with ASIC3 remains largely unknown. In this study, we made a homology model of ASIC3 and used extensive protein–protein docking to predict for the first time, the probable sites of APETx2 interaction on ASIC3. Additionally, using computational alanine scanning, we also suggest the ‘hot-spots’ that are likely to be critical for ASIC3–APETx2 interaction

  3. In silico assessment of interaction of sea anemone toxin APETx2 and acid sensing ion channel 3

    Rahman, Taufiq, E-mail: mtur2@cam.ac.uk; Smith, Ewan St. John

    2014-07-18

    Highlights: • We have made a reasonable model of rat ASIC3 using published structure of chicken ASIC1. • We have docked sea anemone toxin APETx2 on the model. • We have identified two putative sites for toxin binding. • We have argued for plausibility one site over the other. • We have identified the residues that are likely to be critical for APETx2–ASIC3 interaction. - Abstract: Acid sensing ion channels (ASICs) are proton-gated cation channels that are expressed throughout the nervous system and have been implicated in mediating sensory perception of noxious stimuli. Amongst the six ASIC isoforms, ASIC1a, 1b, 2a and 3 form proton-gated homomers, which differ in their activation and inactivation kinetics, expression profiles and pharmacological modulation; protons do not gate ASIC2b and ASIC4. As with many other ion channels, structure-function studies of ASICs have been greatly aided by the discovery of some toxins that act in isoform-specific ways. ASIC3 is predominantly expressed by sensory neurons of the peripheral nervous system where it acts to detect acid as a noxious stimulus and thus plays an important role in nociception. ASIC3 is the only ASIC subunit that is inhibited by the sea anemone (Anthopleura elegantissima)-derived toxin APETx2. However, the molecular mechanism by which APETx2 interacts with ASIC3 remains largely unknown. In this study, we made a homology model of ASIC3 and used extensive protein–protein docking to predict for the first time, the probable sites of APETx2 interaction on ASIC3. Additionally, using computational alanine scanning, we also suggest the ‘hot-spots’ that are likely to be critical for ASIC3–APETx2 interaction.

  4. Upregulation of acid-sensing ion channel 1 protein expression by chronic administration of cocaine in the mouse striatum in vivo

    Zhang, Guo-Chi; Mao, Li-Min; WANG, John Q.; Chu, Xiang-Ping

    2009-01-01

    Acid-sensing ion channels (ASICs) are ligand-gated cation channels activated by a drop in extracellular pH. They are enriched in the mammalian brain with a high synaptic density. Accumulating evidence suggests that ASIC1 contributes to synaptic activity related to learning/memory and fear conditioning, and also plays critical roles in neurodegenerative diseases. In this study, we explored the effect of the psychostimulant, cocaine, on protein expression of ASICs in the mouse forebrain in vivo...

  5. Acid-Sensing Ion Channels Expression, Identity and Role in the Excitability of the Cochlear Afferent Neurons

    González-Garrido, Antonia; Vega, Rosario; Mercado, Francisco; López, Iván A.; Soto, Enrique

    2015-01-01

    Acid-sensing ion channels (ASICs) are activated by an increase in the extracellular proton concentration. There are four genes (ASIC1-4) that encode six subunits, and they are involved in diverse neuronal functions, such as mechanosensation, learning and memory, nociception, and modulation of retinal function. In this study, we characterize the ASIC currents of spiral ganglion neurons (SGNs). These ASIC currents are primarily carried by Na+, exhibit fast activation and desensitization, display a pH50 of 6.2 and are blocked by amiloride, indicating that these are ASIC currents. The ASIC currents were further characterized using several pharmacological tools. Gadolinium and acetylsalicylic acid reduced these currents, and FMRFamide, zinc (at high concentrations) and N,N,N’,N’–tetrakis-(2-piridilmetil)-ethylenediamine increased them, indicating that functional ASICs are composed of the subunits ASIC1, ASIC2, and ASIC3. Neomycin and streptomycin reduced the desensitization rate of the ASIC current in SGNs, indicating that ASICs may contribute to the ototoxic action of aminoglycosides. RT-PCR of the spiral ganglion revealed significant expression of all ASIC subunits. By immunohistochemistry the expression of the ASIC1a, ASIC2a, ASIC2b, and ASIC3 subunits was detected in SGNs. Although only a few SGNs exhibited action potential firing in response to an acidic stimulus, protons in the extracellular solution modulated SGN activity during sinusoidal stimulation. Our results show that protons modulate the excitability of SGNs via ASICs. PMID:26733809

  6. A conformation change in the extracellular domain that accompanies desensitization of acid-sensing ion channel (ASIC) 3.

    Cushman, Kenneth A; Marsh-Haffner, Josephine; Adelman, John P; McCleskey, Edwin W

    2007-04-01

    Acid-sensing ion channels (ASICs) are thought to trigger some forms of acid-induced pain and taste, and to contribute to stroke-induced neural damage. After activation by low extracellular pH, different ASICs undergo desensitization on time scales from 0.1 to 10 s. Consistent with a substantial conformation change, desensitization slows dramatically when temperature drops (Askwith, C.C., C.J. Benson, M.J. Welsh, and P.M. Snyder. 2001. PNAS. 98:6459-6463). The nature of this conformation change is unknown, but two studies showed that desensitization rate is altered by mutations on or near the first transmembrane domain (TM1) (Coric, T., P. Zhang, N. Todorovic, and C.M. Canessa. 2003. J. Biol. Chem. 278:45240-45247; Pfister, Y., I. Gautschi, A.-N. Takeda, M. van Bemmelen, S. Kellenberger, and L. Schild. 2006. J. Biol. Chem. 281:11787-11791). Here we show evidence of a specific conformation change associated with desensitization. When mutated from glutamate to cysteine, residue 79, which is some 20 amino acids extracellular to TM1, can be altered by cysteine-modifying reagents when the channel is closed, but not when it is desensitized; thus, desensitization appears to conceal the residue from the extracellular medium. D78 and E79 are a pair of adjacent acidic amino acids that are highly conserved in ASICs yet absent from epithelial Na(+) channels, their acid-insensitive relatives. Despite large effects on desensitization by mutations at positions 78 and 79-including a shift to 10-fold lower proton concentration with the E79A mutant-there are not significant effects on activation. PMID:17389250

  7. The function and regulation of acid-sensing ion channels (ASICs) and the epithelial Na(+) channel (ENaC): IUPHAR Review 19.

    Boscardin, Emilie; Alijevic, Omar; Hummler, Edith; Frateschi, Simona; Kellenberger, Stephan

    2016-09-01

    Acid-sensing ion channels (ASICs) and the epithelial Na(+) channel (ENaC) are both members of the ENaC/degenerin family of amiloride-sensitive Na(+) channels. ASICs act as proton sensors in the nervous system where they contribute, besides other roles, to fear behaviour, learning and pain sensation. ENaC mediates Na(+) reabsorption across epithelia of the distal kidney and colon and of the airways. ENaC is a clinically used drug target in the context of hypertension and cystic fibrosis, while ASIC is an interesting potential target. Following a brief introduction, here we will review selected aspects of ASIC and ENaC function. We discuss the origin and nature of pH changes in the brain and the involvement of ASICs in synaptic signalling. We expose how in the peripheral nervous system, ASICs cover together with other ion channels a wide pH range as proton sensors. We introduce the mechanisms of aldosterone-dependent ENaC regulation and the evidence for an aldosterone-independent control of ENaC activity, such as regulation by dietary K(+) . We then provide an overview of the regulation of ENaC by proteases, a topic of increasing interest over the past few years. In spite of the profound differences in the physiological and pathological roles of ASICs and ENaC, these channels share many basic functional and structural properties. It is likely that further research will identify physiological contexts in which ASICs and ENaC have similar or overlapping roles. PMID:27278329

  8. The RS685012 Polymorphism of ACCN2, the Human Ortholog of Murine Acid-Sensing Ion Channel (ASIC1) Gene, is Highly Represented in Patients with Panic Disorder.

    Gugliandolo, Agnese; Gangemi, Chiara; Caccamo, Daniela; Currò, Monica; Pandolfo, Gianluca; Quattrone, Diego; Crucitti, Manuela; Zoccali, Rocco Antonio; Bruno, Antonio; Muscatello, Maria Rosaria Anna

    2016-03-01

    Panic disorder (PD) is a disabling anxiety disorder that is characterized by unexpected, recurrent panic attacks, associated with fear of dying and worrying about possible future attacks or other behavioral changes as a consequence of the attacks. The acid-sensing ion channels (ASICs) are a family of proton-sensing channels expressed throughout the nervous system. Their activity is linked to a variety of behaviors including fear, anxiety, pain, depression, learning, and memory. The human analog of ASIC1a is the amiloride-sensitive cation channel 2 (ACCN2). Adenosine A2A receptors are suggested to play an important role in different brain circuits and pathways involved in anxiety reactions. In this work we aimed to evaluate the distribution of ACCN2 rs685012 and ADORA2A rs2298383 polymorphisms in PD patients compared with healthy subjects. We found no association between ADORA2A polymorphism and PD. Instead, the C mutated allele for ACCN2 rs685012 polymorphism was significantly more frequent in patients than in controls. On the contrary, the TT homozygous wild-type genotype and also the ACCN2 TT/ADORA2A CT diplotype were significantly more represented in controls. These results are suggestive for a role of ACCN2 rs685012 polymorphism in PD development in Caucasian people. PMID:26589317

  9. Cyclisation Increases the Stability of the Sea Anemone Peptide APETx2 but Decreases Its Activity at Acid-Sensing Ion Channel 3

    Lachlan D. Rash

    2012-07-01

    Full Text Available APETx2 is a peptide isolated from the sea anemone Anthopleura elegantissima. It is the most potent and selective inhibitor of acid-sensing ion channel 3 (ASIC3 and it is currently in preclinical studies as a novel analgesic for the treatment of chronic inflammatory pain. As a peptide it faces many challenges in the drug development process, including the potential lack of stability often associated with therapeutic peptides. In this study we determined the susceptibility of wild-type APETx2 to trypsin and pepsin and tested the applicability of backbone cyclisation as a strategy to improve its resistance to enzymatic degradation. Cyclisation with either a six-, seven- or eight-residue linker vastly improved the protease resistance of APETx2 but substantially decreased its potency against ASIC3. This suggests that either the N- or C-terminus of APETx2 is involved in its interaction with the channel, which we confirmed by making N- and C-terminal truncations. Truncation of either terminus, but especially the N-terminus, has detrimental effects on the ability of APETx2 to inhibit ASIC3. The current work indicates that cyclisation is unlikely to be a suitable strategy for stabilising APETx2, unless linkers can be engineered that do not interfere with binding to ASIC3.

  10. Functional Expression in Escherichia coli of the Disulfide-Rich Sea Anemone Peptide APETx2, a Potent Blocker of Acid-Sensing Ion Channel 3

    Glenn F. King

    2012-07-01

    Full Text Available Acid-sensing ion channels (ASICs are proton-gated sodium channels present in the central and peripheral nervous system of chordates. ASIC3 is highly expressed in sensory neurons and plays an important role in inflammatory and ischemic pain. Thus, specific inhibitors of ASIC3 have the potential to be developed as novel analgesics. APETx2, isolated from the sea anemone Anthopleura elegantissima, is the most potent and selective inhibitor of ASIC3-containing channels. However, the mechanism of action of APETx2 and the molecular basis for its interaction with ASIC3 is not known. In order to assist in characterizing the ASIC3-APETx2 interaction, we developed an efficient and cost-effective Escherichia coli periplasmic expression system for the production of APETx2. NMR studies on uniformly 13C/15N-labelled APETx2 produced in E. coli showed that the recombinant peptide adopts the native conformation. Recombinant APETx2 is equipotent with synthetic APETx2 at inhibiting ASIC3 channels expressed in Xenopus oocytes. Using this system we mutated Phe15 to Ala, which caused a profound loss of APETx2’s activity on ASIC3. These findings suggest that this expression system can be used to produce mutant versions of APETx2 in order to facilitate structure-activity relationship studies.

  11. Structural plasticity and dynamic selectivity of acid sensing ion channel–toxin complexes

    Baconguis, Isabelle; Gouaux, Eric

    2012-01-01

    Acid sensing ion channels (ASICs) are voltage-independent, amiloride-sensitive channels implicated in diverse physiological processes ranging from nociception to taste. Despite the importance of ASICs in physiology, we know little about the mechanism of channel activation. Here we show that psalmotoxin activates non- and sodium-selective currents in chicken ASIC1a at pH 7.25 and 5.5, respectively. Crystal structures of ASIC1a – psalmotoxin complexes map the toxin binding site to the extracell...

  12. The Earliest Ion Channels

    Pohorille, A.; Wilson, M. A.; Wei, C.

    2009-12-01

    Supplying protocells with ions required assistance from channels spanning their membrane walls. The earliest channels were most likely short proteins that formed transmembrane helical bundles surrounding a water-filled pore. These simple aggregates were capable of transporting ions with efficiencies comparable to those of complex, contemporary ion channels. Channels with wide pores exhibited little ion selectivity but also imposed only modest constraints on amino acid sequences of channel-forming proteins. Channels with small pores could have been selective but also might have required a more precisely defined sequence of amino acids. In contrast to modern channels, their protocellular ancestors had only limited capabilities to regulate ion flux. It is postulated that subsequent evolution of ion channels progressed primarily to acquire precise regulation, and not high efficiency or selectivity. It is further proposed that channels and the surrounding membranes co-evolved.

  13. Mechanosensitive ion channels

    Ken Takahashi

    2016-01-01

    Full Text Available Cell surface receptors are involved in numerous important biological processes including embryogenesis, tissue differentiation, and cellular homeostasis. Among them, mechanosensitive ion channels play an essential role in cellular functions of every cell including neurons, cardiomyocytes, and osteocytes. Here, we discuss types, roles, structures, and biophysical factors that affect the functions of mechanosensitive ion channels.

  14. Ion channel screening.

    Dunlop, John; Bowlby, Mark; Peri, Ravikumar; Tawa, Gregory; LaRocque, James; Soloveva, Veronica; Morin, John

    2008-08-01

    Ion channels are attractive targets for drug discovery with recent estimates indicating that voltage and ligand-gated channels account for the third and fourth largest gene families represented in company portfolios after the G protein coupled and nuclear hormone receptor families. A historical limitation on ion channel targeted drug discovery in the form of the extremely low throughput nature of the gold standard assay for assessing functional activity, patch clamp electrophysiology in mammalian cells, has been overcome by the implementation of multi-well plate format cell-based screening strategies for ion channels. These have taken advantage of various approaches to monitor ion flux or membrane potential using radioactive, non-radioactive, spectroscopic and fluorescence measurements and have significantly impacted both high-throughput screening and lead optimization efforts. In addition, major advances have been made in the development of automated electrophysiological platforms to increase capacity for cell-based screening using formats aimed at recapitulating the gold standard assay. This review addresses the options available for cell-based screening of ion channels with examples of their utility and presents case studies on the successful implementation of high-throughput screening campaigns for a ligand-gated ion channel using a fluorescent calcium indicator, and a voltage-gated ion channel using a fluorescent membrane potential sensitive dye. PMID:18694388

  15. Ion Channels, Natural Nanovalves

    Eisenberg, Bob

    2012-01-01

    Ion channels are proteins with holes down their middle that control the flow of ions and electric current across otherwise impermeable biological membranes. The flow of sodium, potassium, calcium (divalent), and chloride ions have been central issues in biology for more than a century. The flow of current is responsible for the signals of the nervous system that propagate over long distances (meters). The concentration of divalent calcium ions is a 'universal' signal that controls many differ...

  16. Sensing with Ion Channels

    Martinac, Boris

    2008-01-01

    All living cells are able to detect and translate environmental stimuli into biologically meaningful signals. Sensations of touch, hearing, sight, taste, smell or pain are essential to the survival of all living organisms. The importance of sensory input for the existence of life thus justifies the effort made to understand its molecular origins. Sensing with Ion Channels focuses on ion channels as key molecules enabling biological systems to sense and process the physical and chemical stimuli that act upon cells in their living environment. Its aim is to serve as a reference to ion channel specialists and as a source of new information to non specialists who want to learn about the structural and functional diversity of ion channels and their role in sensory physiology.

  17. Physics of Ion Channels

    Kuyucak, Serdar; Bastug, Turgut

    2003-01-01

    We review the basic physics involved in transport of ions across membrane channels in cells. Electrochemical forces that control the diffusion of ions are discussed both from microscopic and macroscopic perspectives. A case is made for use of Brownian dynamics as the minimal phenomenological model that provides a bridge between experiments and more fundamental theoretical approaches. Application of Brownian and molecular dynamics methods to channels with known molecular structures is discussed.

  18. Lipid Ion Channels

    Heimburg, Thomas

    2010-01-01

    The interpretation electrical phenomena in biomembranes is usually based on the assumption that the experimentally found discrete ion conduction events are due to a particular class of proteins called ion channels while the lipid membrane is considered being an inert electrical insulator. The particular protein structure is thought to be related to ion specificity, specific recognition of drugs by receptors and to macroscopic phenomena as nerve pulse propagation. However, lipid membranes in their chain melting regime are known to be highly permeable to ions, water and small molecules, and are therefore not always inert. In voltage-clamp experiments one finds quantized conduction events through protein-free membranes in their melting regime similar to or even undistinguishable from those attributed to proteins. This constitutes a conceptual problem for the interpretation of electrophysiological data obtained from biological membrane preparations. Here, we review the experimental evidence for lipid ion channels...

  19. Mitochondrial Ion Channels

    O’Rourke, Brian

    2009-01-01

    In work spanning more than a century, mitochondria have been recognized for their multifunctional roles in metabolism, energy transduction, ion transport, inheritance, signaling, and cell death. Foremost among these tasks is the continuous production of ATP through oxidative phosphorylation, which requires a large electrochemical driving force for protons across the mitochondrial inner membrane. This process requires a membrane with relatively low permeability to ions to minimize energy dissipation. However, a wealth of evidence now indicates that both selective and nonselective ion channels are present in the mitochondrial inner membrane, along with several known channels on the outer membrane. Some of these channels are active under physiological conditions, and others may be activated under pathophysiological conditions to act as the major determinants of cell life and death. This review summarizes research on mitochondrial ion channels and efforts to identify their molecular correlates. Except in a few cases, our understanding of the structure of mitochondrial ion channels is limited, indicating the need for focused discovery in this area. PMID:17059356

  20. Nomenclature for Ion channel Subunits

    Bradley, Jonathan; Frings, Stephan; Yau, King-Wai; Reed, Randall

    2001-01-01

    Presents the nomenclature for ion channel subunits. Role of ion channels in the mediation of visual and olfactory signal transduction; Expression of ion channels in cell types and tissues; Assessment on the nucleotide sensitivity, ion conductance and calcium modulation in heteromers.

  1. Acid-sensing ion channels in rat hypothalamic vasopressin neurons of the supraoptic nucleus

    Ohbuchi, T.; Sato, K.; Suzuki, H.; Okada, Y.; Dayanithi, Govindan; Murphy, D.; Ueta, Y.

    2010-01-01

    Roč. 588, č. 12 (2010), s. 2147-2162. ISSN 0022-3751 Institutional research plan: CEZ:AV0Z50390703 Keywords : hypothalamus * ASIC * oxytocin Subject RIV: FH - Neurology Impact factor: 5.139, year: 2010

  2. Calcium ion channel and epilepsy

    Yudan Lü; Weihong Lin; Dihui Ma

    2006-01-01

    OBJECTIVE: To review the relationship between calcium ion channel and epilepsy for well investigating the pathogenesis of epilepsy and probing into the new therapeutic pathway of epilepsy.DATA SOURCES: A computer-based online research Calcium ion channel and epilepsy related articles published between January 1994 and December 2006 in the CKNI and Wanfang database with the key words of "calcium influxion, epilepsy, calcium-channel blocker". The language was limited to Chinese. At the same time,related articles published between January 1993 and December 2006 in Pubmed were searched for on online with the key words of "calcium influxion, epilepsy" in English.STUDY SELECTION: The materials were selected firstly. Inclusive criteria: ① Studies related to calcium ion channel and the pat1hogenesis of epilepsy. ② Studies on the application of calcium ion channel blocker in the treatment of epilepsy. Exclusive criteria: repetitive or irrelated studies.DATA EXTRACTION: According to the criteria, 123 articles were retrieved and 93 were excluded due to repetitive or irrelated studies. Altogether 30 articles met the inclusive criteria, 11 of them were about the structure and characters of calcium ion channel, 10 about calcium ion channel and the pathogenesis of epilepsy and 9 about calcium blocker and the treatment of epilepsy.DATA SYNTHESIS: Calcium ion channels mainly consist of voltage dependent calcium channel and receptor operated calcium channel. Depolarization caused by voltage gating channel-induced influxion is the pathological basis of epileptic attack, and it is found in many studies that many anti-epileptic drugs have potential and direct effect to rivalizing voltage-dependent calcium ion channel.CONCLUSION: Calcium influxion plays an important role in the seizure of epilepsy. Some calcium antagonists seen commonly are being tried in the clinical therapy of epilepsy that is being explored, not applied in clinical practice. If there are enough evidences to

  3. Demystifying Mechanosensitive Piezo Ion Channels.

    Xu, X Z Shawn

    2016-06-01

    Mechanosensitive channels mediate touch, hearing, proprioception, and blood pressure regulation. Piezo proteins, including Piezo1 and Piezo2, represent a new class of mechanosensitive channels that have been reported to play key roles in most, if not all, of these modalities. The structural architecture and molecular mechanisms by which Piezos act as mechanosensitive channels, however, remain mysterious. Two new studies have now provided critical insights into the atomic structure and molecular basis of the ion permeation and mechano-gating properties of the Piezo1 channel. PMID:27164907

  4. Agmatine block voltage-gated calcium channels and acid sensing ion channels in the cultured hippocampal neuron

    WENGXie-Chuan; ZHENGJian-Quan; GAIXiao-Dan; LIJin; XiaoWen-Bin

    2004-01-01

    Agrnatine was first identified and characterized as a candidate for CDS (clonidine displacing substance) in the bovine brain in 1994. The following researches demonstrated that agmatine was a widely distributed endogenous substance and performed a lot of biological functions in the central nervous system. The evidence revealed its targets were diverse and its

  5. Computational Tools for Interpreting Ion Channel pH-Dependence.

    Ivan Sazanavets

    Full Text Available Activity in many biological systems is mediated by pH, involving proton titratable groups with pKas in the relevant pH range. Experimental analysis of pH-dependence in proteins focusses on particular sidechains, often with mutagenesis of histidine, due to its pKa near to neutral pH. The key question for algorithms that predict pKas is whether they are sufficiently accurate to effectively narrow the search for molecular determinants of pH-dependence. Through analysis of inwardly rectifying potassium (Kir channels and acid-sensing ion channels (ASICs, mutational effects on pH-dependence are probed, distinguishing between groups described as pH-coupled or pH-sensor. Whereas mutation can lead to a shift in transition pH between open and closed forms for either type of group, only for pH-sensor groups does mutation modulate the amplitude of the transition. It is shown that a hybrid Finite Difference Poisson-Boltzmann (FDPB - Debye-Hückel continuum electrostatic model can filter mutation candidates, providing enrichment for key pH-coupled and pH-sensor residues in both ASICs and Kir channels, in comparison with application of FDPB alone.

  6. Ion Selectivity in Voltage-gated Biological Ion Channels

    Finnerty, J. J.; Peyser, Alexander; Carloni, Paolo

    2014-01-01

    We demonstrate that a combination of calculating the exact electrostatic potential and approximate volume exclusion within the sub-nanometer selectivity filter of a biological ion channel is critical for estimating the selectivity of the ion channel. Biological membranes separate solutions of different ionic composition which can lead to significant transmembrane voltages and chemical potentials. Ion selective biological ion channels are used by nature to manage these potentials. The high cha...

  7. ICEPO: the ion channel electrophysiology ontology.

    Hinard, V; Britan, A; Rougier, J S; Bairoch, A; Abriel, H; Gaudet, P

    2016-01-01

    Ion channels are transmembrane proteins that selectively allow ions to flow across the plasma membrane and play key roles in diverse biological processes. A multitude of diseases, called channelopathies, such as epilepsies, muscle paralysis, pain syndromes, cardiac arrhythmias or hypoglycemia are due to ion channel mutations. A wide corpus of literature is available on ion channels, covering both their functions and their roles in disease. The research community needs to access this data in a user-friendly, yet systematic manner. However, extraction and integration of this increasing amount of data have been proven to be difficult because of the lack of a standardized vocabulary that describes the properties of ion channels at the molecular level. To address this, we have developed Ion Channel ElectroPhysiology Ontology (ICEPO), an ontology that allows one to annotate the electrophysiological parameters of the voltage-gated class of ion channels. This ontology is based on a three-state model of ion channel gating describing the three conformations/states that an ion channel can adopt: closed, open and inactivated. This ontology supports the capture of voltage-gated ion channel electrophysiological data from the literature in a structured manner and thus enables other applications such as querying and reasoning tools. Here, we present ICEPO (ICEPO ftp site:ftp://ftp.nextprot.org/pub/current_release/controlled_vocabularies/), as well as examples of its use. PMID:27055825

  8. Natural Products and Ion Channel Pharmacology

    Teichert, Russell W.; Olivera, Baldomero M.

    2010-01-01

    An accelerated rate of natural-product discovery is critical for the future of ion channel pharmacology. For the full potential of natural products to be realized, an interdisciplinary initiative is required that combines chemical ecology and ion channel physiology. A prime source of future drug leads targeted to ion channels is the vast assortment of compounds that mediate biotic interactions in the marine environment. Many animals have evolved a chemical strategy to change the behavior of t...

  9. Ions in Fluctuating Channels: Transistors Alive

    Eisenberg, Bob

    2005-01-01

    Ion channels are proteins with a hole down the middle embedded in cell membranes. Membranes form insulating structures and the channels through them allow and control the movement of charged particles, spherical ions, mostly Na+, K+, Ca++, and Cl-. Membranes contain hundreds or thousands of types of channels, fluctuating between open conducting, and closed insulating states. Channels control an enormous range of biological function by opening and closing in response to specific stimuli using ...

  10. Calmodulin modulation of ion channels and receptors

    2002-01-01

    Ion channels and receptors are the structural basis for neural signaling and transmission. Recently, the function of ion channels and receptors has been demonstrated to be modulated by many intracellular and extracellular chemicals and signaling molecules. Increasing evidence indicates that the complexity and plasticity of the function of central nervous system is determined by the modulation of ion channels and receptors. Among various mechanisms, Ca 2+ signaling pathways play important roles in neuronal activity and some pathological changes. Ca 2+ influx through ion channels and receptors can modulate its further influx in a feedback way or modulate other ion channels and receptors. The common feature of the modulation is that Ca 2+ /calmodulin (CaM) is the universal mediator. CaM maintains the coordination among ion channels/receptors and intracellular Ca 2+ homeostasis by feedback modulation of ion channels/receptors activity. This review focuses on the modulating processes of ion channels and receptors mediated by CaM, and further elucidates the mechanisms of Ca 2+ signaling.

  11. Channeling of boron ions into silicon

    Channeled and random distributions of boron ions implanted over the energy range 50 keV--1.8 MeV into silicon have been measured using the differential capacitance technique. When implantations are performed along the or axis, profiles exhibit a strong orientation dependance. The best channeled profiles shows that more than 70% of the implanted dose is in the channeled peak

  12. Understanding autoimmunity: The ion channel perspective.

    RamaKrishnan, Anantha Maharasi; Sankaranarayanan, Kavitha

    2016-07-01

    Ion channels are integral membrane proteins that orchestrate the passage of ions across the cell membrane and thus regulate various key physiological processes of the living system. The stringently regulated expression and function of these channels hold a pivotal role in the development and execution of various cellular functions. Malfunction of these channels results in debilitating diseases collectively termed channelopathies. In this review, we highlight the role of these proteins in the immune system with special emphasis on the development of autoimmunity. The role of ion channels in various autoimmune diseases is also listed out. This comprehensive review summarizes the ion channels that could be used as molecular targets in the development of new therapeutics against autoimmune disorders. PMID:26854401

  13. High-threshold mechanosensitive ion channels blocked by a novel conopeptide mediate pressure-evoked pain.

    Liam J Drew

    Full Text Available Little is known about the molecular basis of somatosensory mechanotransduction in mammals. We screened a library of peptide toxins for effects on mechanically activated currents in cultured dorsal root ganglion neurons. One conopeptide analogue, termed NMB-1 for noxious mechanosensation blocker 1, selectively inhibits (IC(50 1 microM sustained mechanically activated currents in a subset of sensory neurons. Biotinylated NMB-1 retains activity and binds selectively to peripherin-positive nociceptive sensory neurons. The selectivity of NMB-1 was confirmed by the fact that it has no inhibitory effects on voltage-gated sodium and calcium channels, or ligand-gated channels such as acid-sensing ion channels or TRPA1 channels. Conversely, the tarantula toxin, GsMTx-4, which inhibits stretch-activated ion channels, had no effects on mechanically activated currents in sensory neurons. In behavioral assays, NMB-1 inhibits responses only to high intensity, painful mechanical stimulation and has no effects on low intensity mechanical stimulation or thermosensation. Unexpectedly, NMB-1 was found to also be an inhibitor of rapid FM1-43 loading (a measure of mechanotransduction in cochlear hair cells. These data demonstrate that pharmacologically distinct channels respond to distinct types of mechanical stimuli and suggest that mechanically activated sustained currents underlie noxious mechanosensation. NMB-1 thus provides a novel diagnostic tool for the molecular definition of channels involved in hearing and pressure-evoked pain.

  14. Channeling of boron ions into silicon

    Lecrosnier, D.; Paugam, J.; Gallou, J.

    1977-04-01

    Channeled and random distributions of boron ions implanted over the energy range 50 keV--1.8 MeV into silicon have been measured using the differential capacitance technique. When implantations are performed along the <110> or <111> axis, profiles exhibit a strong orientation dependance. The best channeled profiles shows that more than 70% of the implanted dose is in the channeled peak.

  15. Ion-beam channeling in a quasicrystal

    We have observed ion-beam channeling in a quasicrystal. For 1-MeV 4He+ ions in icosahedral Al-Cu-Fe the maximum effect found is 36%. The full width at half maximum of the observed dips is 1.3 degree. The effect persists up to great depths (>200 nm), thus showing a high degree of ordering in this phase

  16. Single-Channel Recording of Ligand-Gated Ion Channels.

    Plested, Andrew J R

    2016-01-01

    Single-channel recordings reveal the microscopic properties of individual ligand-gated ion channels. Such recordings contain much more information than measurements of ensemble behavior and can yield structural and functional information about the receptors that participate in fast synaptic transmission in the brain. With a little care, a standard patch-clamp electrophysiology setup can be adapted for single-channel recording in a matter of hours. Thenceforth, it is a realistic aim to record single-molecule activity with microsecond resolution from arbitrary cell types, including cell lines and neurons. PMID:27480725

  17. Voltage-gated lipid ion channels

    Blicher, Andreas; Heimburg, Thomas Rainer

    2013-01-01

    probability as a function of voltage. The voltage-dependence of the lipid pores is found comparable to that of protein channels. Lifetime distributions of open and closed events indicate that the channel open distribution does not follow exponential statistics but rather power law behavior for long open times......Synthetic lipid membranes can display channel-like ion conduction events even in the absence of proteins. We show here that these events are voltage-gated with a quadratic voltage dependence as expected from electrostatic theory of capacitors. To this end, we recorded channel traces and current...

  18. Ion-beam channeling in a quasicrystal

    du Marchie van Voorthuysen, E.H.; Smulders, P.J.M. (Vakgroep Nucleaire Vaste Stof Fysica, University of Groningen, Westersingel 34, NL 9718 CM Groningen (Netherlands)); Werkman, R.D. (Vakgroep Vaste Stof Fysica, University of Groningen, Nijenborgh 18, NL 9747 AG Groningen (Netherlands)); de Boer, J.L.; van Smaalen, S. (Laboratory of Inorganic Chemistry, University of Groningen, Nijenborgh 16, NL 9747 AG Groningen (Netherlands))

    1992-05-01

    We have observed ion-beam channeling in a quasicrystal. For 1-MeV {sup 4}He{sup +} ions in icosahedral Al-Cu-Fe the maximum effect found is 36%. The full width at half maximum of the observed dips is 1.3{degree}. The effect persists up to great depths ({gt}200 nm), thus showing a high degree of ordering in this phase.

  19. The earliest ion channels in protocellular membranes

    Mijajlovic, Milan; Pohorille, Andrew; Wilson, Michael; Wei, Chenyu

    Cellular membranes with their hydrophobic interior are virtually impermeable to ions. Bulk of ion transport through them is enabled through ion channels. Ion channels of contemporary cells are complex protein molecules which span the membrane creating a cylindrical pore filled with water. Protocells, which are widely regarded as precursors to modern cells, had similarly impermeable membranes, but the set of proteins in their disposal was much simpler and more limited. We have been, therefore, exploring an idea that the first ion channels in protocellular membranes were formed by much smaller peptide molecules that could spontaneously self-assemble into short-lived cylindrical bundles in a membrane. Earlier studies have shown that a group of peptides known as peptaibols is capable of forming ion channels in lipid bilayers when they are exposed to an electric field. Peptaibols are small, non-genetically encoded peptides produced by some fungi as a part of their system of defense against bacteria. They are usually only 14-20 residues long, which is just enough to span the membrane. Their sequence is characterized by the presence of non-standard amino acids which, interestingly, are also expected to have existed on the early earth. In particular, the presence of 2-aminoisobutyric acid (AIB) gives peptaibols strong helix forming propensities. Association of the helices inside membranes leads to the formation of cylindrical bundles, typically containing 4 to 10 monomers. Although peptaibols are excellent candidates for models of the earliest ion channels their struc-tures, which are stabilized only by van der Waals forces and occasional hydrogen bonds between neighboring helices, are not very stable. Although it might properly reflect protobiological real-ity, it is also a major obstacle in studying channel behavior. For this reason we focused on two members of the peptaibol family, trichotoxin and antiamoebin, which are characterized by a single conductance level. This

  20. Dynamical Properties of Potassium Ion Channels with a Hierarchical Model

    ZHAN Yong; AN Hai-Long; YU Hui; ZHANG Su-Hua; HAN Ying-Rong

    2006-01-01

    @@ It is well known that potassium ion channels have higher permeability than K ions, and the permeable rate of a single K ion channel is about 108 ions per second. We develop a hierarchical model of potassium ion channel permeation involving ab initio quantum calculations and Brownian dynamics simulations, which can consistently explain a range of channel dynamics. The results show that the average velocity of K ions, the mean permeable time of K ions and the permeable rate of single channel are about 0.92nm/ns, 4.35ns and 2.30×108 ions/s,respectively.

  1. The "sweet" side of ion channels

    Lazniewska, Joanna; Weiss, Norbert

    Vol. 167. Cham : Springer, 2014 - (Nilius, B.; Gudermann, T.; Jahn, R.; Lill, R.; Offermanns, S.; Petersen, O.), s. 67-114 ISBN 978-3-319-11920-5 Institutional support: RVO:61388963 Keywords : ion channel * N-linked glycosylation * O-linked glycosylation * glycan * protein glycosylation Subject RIV: CE - Biochemistry

  2. Conductance of Ion Channels - Theory vs. Experiment

    Pohorille, Andrew; Wilson, Michael; Mijajlovic, Milan

    2013-01-01

    Transmembrane ion channels mediate a number of essential physiological processes in a cell ranging from regulating osmotic pressure to transmission of neural signals. Kinetics and selectivity of ion transport is of critical importance to a cell and, not surprisingly, it is a subject of numerous experimental and theoretical studies. In this presentation we will analyze in detail computer simulations of two simple channels from fungi - antiamoebin and trichotoxin. Each of these channels is made of an alpha-helical bundle of small, nongenomically synthesized peptides containing a number of rare amino acids and exhibits strong antimicrobial activity. We will focus on calculating ionic conductance defined as the ratio of ionic current through the channel to applied voltage. From molecular dynamics simulations, conductance can be calculated in at least two ways, each involving different approximations. Specifically, the current, given as the number of charges transferred through the channel per unit of time, can be obtained from the number of events in which ions cross the channel during the simulation. This method works well for large currents (high conductance values and/or applied voltages). If the number of crossing events is small, reliable estimates of current are difficult to achieve. Alternatively, conductance can be estimated assuming that ion transport can be well approximated as diffusion in the external potential given by the free energy profile. Then, the current can be calculated by solving the one-dimensional diffusion equation in this external potential and applied voltage (the generalized Nernst-Planck equation). To do so three ingredients are needed: the free energy profile, the position-dependent diffusion coefficient and the diffusive flux of ions into the channel. All these quantities can be obtained from molecular dynamics simulations. An important advantage of this method is that it can be used equally well to estimating large and small currents

  3. Calcium homeostasis modulator (CALHM) ion channels.

    Ma, Zhongming; Tanis, Jessica E; Taruno, Akiyuki; Foskett, J Kevin

    2016-03-01

    Calcium homeostasis modulator 1 (CALHM1), formerly known as FAM26C, was recently identified as a physiologically important plasma membrane ion channel. CALHM1 and its Caenorhabditis elegans homolog, CLHM-1, are regulated by membrane voltage and extracellular Ca(2+) concentration ([Ca(2+)]o). In the presence of physiological [Ca(2+)]o (∼1.5 mM), CALHM1 and CLHM-1 are closed at resting membrane potentials but can be opened by strong depolarizations. Reducing [Ca(2+)]o increases channel open probability, enabling channel activation at negative membrane potentials. Together, voltage and Ca(2+) o allosterically regulate CALHM channel gating. Through convergent evolution, CALHM has structural features that are reminiscent of connexins and pannexins/innexins/LRRC8 (volume-regulated anion channel (VRAC)) gene families, including four transmembrane helices with cytoplasmic amino and carboxyl termini. A CALHM1 channel is a hexamer of CALHM1 monomers with a functional pore diameter of ∼14 Å. CALHM channels discriminate poorly among cations and anions, with signaling molecules including Ca(2+) and ATP able to permeate through its pore. CALHM1 is expressed in the brain where it plays an important role in cortical neuron excitability induced by low [Ca(2+)]o and in type II taste bud cells in the tongue that sense sweet, bitter, and umami tastes where it functions as an essential ATP release channel to mediate nonsynaptic neurotransmitter release. CLHM-1 is expressed in C. elegans sensory neurons and body wall muscles, and its genetic deletion causes locomotion defects. Thus, CALHM is a voltage- and Ca(2+) o-gated ion channel, permeable to large cations and anions, that plays important roles in physiology. PMID:26603282

  4. Targeting ion channels in cystic fibrosis.

    Mall, Marcus A; Galietta, Luis J V

    2015-09-01

    Mutations in the cystic fibrosis transmembrane conductance regulator (CFTR) gene cause a characteristic defect in epithelial ion transport that plays a central role in the pathogenesis of cystic fibrosis (CF). Hence, pharmacological correction of this ion transport defect by targeting of mutant CFTR, or alternative ion channels that may compensate for CFTR dysfunction, has long been considered as an attractive approach to a causal therapy of this life-limiting disease. The recent introduction of the CFTR potentiator ivacaftor into the therapy of a subgroup of patients with specific CFTR mutations was a major milestone and enormous stimulus for seeking effective ion transport modulators for all patients with CF. In this review, we discuss recent breakthroughs and setbacks with CFTR modulators designed to rescue mutant CFTR including the common mutation F508del. Further, we examine the alternative chloride channels TMEM16A and SLC26A9, as well as the epithelial sodium channel ENaC as alternative targets in CF lung disease, which remains the major cause of morbidity and mortality in patients with CF. Finally, we will focus on the hurdles that still need to be overcome to make effective ion transport modulation therapies available for all patients with CF irrespective of their CFTR genotype. PMID:26115565

  5. Ion Channels Involved in Cell Volume Regulation

    Hoffmann, Else Kay

    2011-01-01

    This mini review outlines studies of cell volume regulation in two closely related mammalian cell lines: nonadherent Ehrlich ascites tumour cells (EATC) and adherent Ehrlich Lettre ascites (ELA) cells. Focus is on the regulatory volume decrease (RVD) that occurs after cell swelling, the volume...... regulatory ion channels involved, and the mechanisms (cellular signalling pathways) that regulate these channels. Finally, I shall also briefly review current investigations in these two cell lines that focuses on how changes in cell volume can regulate cell functions such as cell migration, proliferation...

  6. Ion channels to inactivate neurons in Drosophila

    James J L Hodge

    2009-08-01

    Full Text Available Ion channels are the determinants of excitability; therefore, manipulation of their levels and properties provides an opportunity for the investigator to modulate neuronal and circuit function. There are a number of ways to suppress electrical activity in Drosophila neurons, for instance, over-expression of potassium channels (i.e. Shaker Kv1, Shaw Kv3, Kir2.1 and DORK that are open at resting membrane potential. This will result in increased potassium efflux and membrane hyperpolarisation setting resting membrane potential below the threshold required to fire action potentials. Alternatively over-expression of other channels, pumps or co-transporters that result in a hyperpolarised membrane potential will also prevent firing. Lastly, neurons can be inactivated by, disrupting or reducing the level of functional voltage-gated sodium (Nav1 paralytic or calcium (Cav2 cacophony channels that mediate the depolarisation phase of action potentials. Similarly, strategies involving the opposite channel manipulation should allow net depolarisation and hyperexcitation in a given neuron. These changes in ion channel expression can be brought about by the versatile transgenic (i.e. Gal4/UAS based systems available in Drosophila allowing fine temporal and spatial control of (channel transgene expression. These systems are making it possible to electrically inactivate (or hyperexcite any neuron or neural circuit in the fly brain, and much like an exquisite lesion experiment, potentially elucidate whatever interesting behaviour or phenotype each network mediates. These techniques are now being used in Drosophila to reprogram electrical activity of well-defined circuits and bring about robust and easily quantifiable changes in behaviour, allowing different models and hypotheses to be rapidly tested.

  7. Ion beam irradiated optical channel waveguides

    Banyasz, I.; Rajta, I.; Nagy, G. U. L.; Zolnai, Z.; Havránek, Vladimír; Pelli, S.; Veres, M.; Himics, L.; Berneschi, S.; Nunzi-Conti, G.; Righini, G. C.

    Vol. 8988. Washington: SPIE International, 2014, s. 898814. ISBN 978-0-8194-9901-1. ISSN 0277-786X. [Conference on Integrated Optics - Devices, materials, and Technologies XVIII. San Francisco (US), 03.02.2014-05.02.2014] R&D Projects: GA MŠk LM2011019 Institutional support: RVO:61389005 Keywords : channel optical waveguides * ion beam irradiation * Er-doped tungsten-tellurite glass * bismuth germanate * SRIM simulation * phase contrast microscopy * micro Raman spectroscopy * focused ion beam Subject RIV: BH - Optics, Masers, Lasers

  8. Transmission ion channeling images of crystal defects

    This paper demonstrates how images of crystal defects can be produced using ion channeling. A focused, scanned beam of MeV protons from the University of Oxford Nuclear Microprobe has been used. With the beam aligned with a channeling direction of the crystal, protons transmitted through the thinned samples are detected and images produced showing the mean transmitted proton energy loss. Regions where dechanneling is occurring owing to the presence of a defect are revealed. Images of groups of misfit dislocations in epitaxial Si1-xGex on Si provide evidence of the lattice plane rotation produced by these defects. Stacking faults have also been imaged, and the choice of the planar channeling direction enables information on the fault translation vector to be obtained. (orig.)

  9. Ion channeling investigations in high Tc materials

    A clear evidence of an abrupt change (∝0.015 A) in the atomic displacement amplitude (u) of Cu atoms in Y/ErBa2Cu3O7-δ across the superconducting transition (Tc=92 K) is obtained. This variation is associated with Tc. Channeling scans across [301] and [331] directions have given diagnostics of inherent twinning in these crystals. Preliminary studies of the energy loss of 4 MeV protons and 6 MeV α-particles transmitted along the [001] direction of 7-10μm YBa2Cu3O7-δ crystals show 3-4% less loss of energy as the sample temperature is taken from 100 to 30 K. In the same temperature range the REC X-rays produced by 80 MeV fully stripped F ions channeled along the [001] direction are seen to reduce by ∝20% in intensity. (orig.)

  10. High temperature ion channels and pores

    Kang, Xiaofeng (Inventor); Gu, Li Qun (Inventor); Cheley, Stephen (Inventor); Bayley, Hagan (Inventor)

    2011-01-01

    The present invention includes an apparatus, system and method for stochastic sensing of an analyte to a protein pore. The protein pore may be an engineer protein pore, such as an ion channel at temperatures above 55.degree. C. and even as high as near 100.degree. C. The analyte may be any reactive analyte, including chemical weapons, environmental toxins and pharmaceuticals. The analyte covalently bonds to the sensor element to produce a detectable electrical current signal. Possible signals include change in electrical current. Detection of the signal allows identification of the analyte and determination of its concentration in a sample solution. Multiple analytes present in the same solution may also be detected.

  11. High throughput electrophysiology: new perspectives for ion channel drug discovery

    Willumsen, Niels J; Bech, Morten; Olesen, Søren-Peter;

    2003-01-01

    Proper function of ion channels is crucial for all living cells. Ion channel dysfunction may lead to a number of diseases, so-called channelopathies, and a number of common diseases, including epilepsy, arrhythmia, and type II diabetes, are primarily treated by drugs that modulate ion channels. A...... introduction of new powerful HTS electrophysiological techniques is predicted to cause a revolution in ion channel drug discovery....... cornerstone in current drug discovery is high throughput screening assays which allow examination of the activity of specific ion channels though only to a limited extent. Conventional patch clamp remains the sole technique with sufficiently high time resolution and sensitivity required for precise and direct...... characterization of ion channel properties. However, patch clamp is a slow, labor-intensive, and thus expensive, technique. New techniques combining the reliability and high information content of patch clamping with the virtues of high throughput philosophy are emerging and predicted to make a number of ion...

  12. Theory of the ion-channel laser

    A relativistic electron beam propagating through a plasma in the ion-focussed regime exhibits an electromagnetic instability with peak growth rate near a resonant frequency ω∼2 γ2 ωβ, where γ is the Lorentz factor and ωβ is the betatron frequency. The physical basis for this instability is that an ensemble of relativistic simple harmonic oscillators, weakly driven by an electromagnetic wave, will lose energy to the wave through axial bunching. This ''bunching'' corresponds to the development of an rf component in the beam current, and a coherent centroid oscillation. The subject of this thesis is the theory of a laser capitalizing on this electromagnetic instability. A historical perspective is offered. The basic features of relativistic electron beam propagation in the ion-focussed regime are reviewed. The ion-channel laser (ICL) instability is explored theoretically through an eikonal formalism, analgous to the ''KMR'' formalism for the free-electron laser (FEL). The dispersion relation is derived, and the dependence of growth rate on three key parameters is explored. Finite temperature effects are assessed. From this work it is found that the typical gain length for amplification is longer than the Rayleigh length and we go on to consider three mechanisms which will tend to guide waveguide. First, we consider the effect of the ion channel as a dielectric waveguide. We consider next the use of a conducting waveguide, appropriate for a microwave amplifier. Finally, we examine a form of ''optical guiding'' analgous to that found in the FEL. The eikonal formalism is used to model numerically the instability through and beyond saturation. Results are compared with the numerical simulation of the full equations of motion, and with the analytic scalings. The analytical requirement on detuning spread is confirmed

  13. Ion channels, phosphorylation and mammalian sperm capacitation

    Pablo E Visconti; Dario Krapf; José Luis de la Vega-Beltrán; Juan José Acevedo; Alberto Darszon

    2011-01-01

    Sexually reproducing animals require an orchestrated communication between spermatozoa and the egg to generate a new individual. Capacitation, a maturational complex phenomenon that occurs in the female reproductive tract, renders spermatozoa capable of binding and fusing with the oocyte, and it is a requirement for mammalian fertilization. Capacitation encompasses plasma membrane reorganization, ion permeability regulation, cholesterol loss and changes in the phosphorylation state of many proteins. Novel tools to study sperm ion channels, image intracellular ionic changes and proteins with better spatial and temporal resolution, are unraveling how modifications in sperm ion transport and phosphorylation states lead to capacitation. Recent evidence indicates that two parallel pathways regulate phosphorylation events leading to capacitation, one of them requiring activation of protein kinase A and the second one involving inactivation of ser/thr phosphatases. This review examines the involvement of ion transporters and phosphorylation signaling processes needed for spermatozoa to achieve capacitation. Understanding the molecular mechanisms leading to fertilization is central for societies to deal with rising male infertility rates, to develop safe male gamete-based contraceptives and to preserve biodiversity through better assisted fertilization strategies.

  14. Recent Genetic Discoveries Implicating Ion Channels in Human Cardiovascular Diseases

    George, Alfred L.

    2013-01-01

    The term channelopathy refers to human genetic disorders caused by mutations in genes encoding ion channels or their interacting proteins. Recent advances in this field have been enabled by next-generation DNA sequencing strategies such as whole exome sequencing with several intriguing and unexpected discoveries. This review highlights important discoveries implicating ion channels or ion channel modulators in cardiovascular disorders including cardiac arrhythmia susceptibility, cardiac condu...

  15. Ion Channels and Their Roles on The Pathogenesis of Epilepsy

    Ahmet Akay

    2010-04-01

    Full Text Available Ion channels especially nicotinic acethylcholine receptor channels, potassium and sodium channels play roles in the physiopathology of various types of epilepsies. They play vital roles in either providing membrane potential and in neuronal signaling. In this review, first, information about the structure and function of ion channels and then how the structure and functions of subunits of them change within a neurological disease like epilepsy will be given. [Archives Medical Review Journal 2010; 19(2.000: 72-84

  16. Plant Ion Channels: Gene Families, Physiology, and Functional Genomics Analyses

    Ward, John M.; Mäser, Pascal; Schroeder, Julian I.

    2016-01-01

    Distinct potassium, anion, and calcium channels in the plasma membrane and vacuolar membrane of plant cells have been identified and characterized by patch clamping. Primarily owing to advances in Arabidopsis genetics and genomics, and yeast functional complementation, many of the corresponding genes have been identified. Recent advances in our understanding of ion channel genes that mediate signal transduction and ion transport are discussed here. Some plant ion channels, for example, ALMT and SLAC anion channel subunits, are unique. The majority of plant ion channel families exhibit homology to animal genes; such families include both hyperpolarization-and depolarization-activated Shaker-type potassium channels, CLC chloride transporters/channels, cyclic nucleotide–gated channels, and ionotropic glutamate receptor homologs. These plant ion channels offer unique opportunities to analyze the structural mechanisms and functions of ion channels. Here we review gene families of selected plant ion channel classes and discuss unique structure-function aspects and their physiological roles in plant cell signaling and transport. PMID:18842100

  17. Small molecule-based synthetic ion channels modulate smooth muscle contraction and epithelial ion transport

    Yau, Kwok-hei; 邱國禧

    2011-01-01

    In living systems, ion channels are membrane transport proteins that provide pathways for the passive diffusion of ions through lipid membranes. The flow of ions across membranes is the basis of many important physiological processes, including but not limited to the regulation of membrane potential, transepithelial transport and cell volume. While many efforts have been made to understand the biological roles of natural ion channels, the biological activities of artificial ion channels remai...

  18. Coupled channels effects in heavy ion elastic scattering

    Bond, P.D.

    1977-01-01

    The effects of inelastic excitation on the elastic scattering of heavy ions are considered within a coupled channels framework. Both Coulomb and nuclear excitation results are applied to /sup 18/O + /sup 184/W and other heavy ion reactions. (SDF)

  19. Bioinspired Artificial Sodium and Potassium Ion Channels.

    Rodríguez-Vázquez, Nuria; Fuertes, Alberto; Amorín, Manuel; Granja, Juan R

    2016-01-01

    In Nature, all biological systems present a high level of compartmentalization in order to carry out a wide variety of functions in a very specific way. Hence, they need ways to be connected with the environment for communication, homeostasis equilibrium, nutrition, waste elimination, etc. The biological membranes carry out these functions; they consist of physical insulating barriers constituted mainly by phospholipids. These amphipathic molecules spontaneously aggregate in water to form bilayers in which the polar groups are exposed to the aqueous media while the non-polar chains self-organize by aggregating to each other to stay away from the aqueous media. The insulating properties of membranes are due to the formation of a hydrophobic bilayer covered at both sides by the hydrophilic phosphate groups. Thus, lipophilic molecules can permeate the membrane freely, while the small charged or very hydrophilic molecules require the assistance of other membrane components in order to overcome the energetic cost implied in crossing the non-polar region of the bilayer. Most of the large polar species (such as oligosaccharides, polypeptides or nucleic acids) cross into and out of the cell via endocytosis and exocytosis, respectively. Nature has created a series of systems (carriers and pores) in order to control the balance of small hydrophilic molecules and ions. The most important structures to achieve these goals are the ionophoric proteins that include the channel proteins, such as the sodium and potassium channels, and ionic transporters, including the sodium/potassium pumps or calcium/sodium exchangers among others. Inspired by these, scientists have created non-natural synthetic transporting structures to mimic the natural systems. The progress in the last years has been remarkable regarding the efficient transport of Na(+) and K(+) ions, despite the fact that the selectivity and the ON/OFF state of the non-natural systems remain a present and future challenge

  20. Biological Membrane Ion Channels Dynamics, Structure, and Applications

    Chung, Shin-Ho; Krishnamurthy, Vikram

    2007-01-01

    Ion channels are biological nanotubes that are formed by membrane proteins. Because ion channels regulate all electrical activities in living cells, understanding their mechanisms at a molecular level is a fundamental problem in biology. This book deals with recent breakthroughs in ion-channel research that have been brought about by the combined effort of experimental biophysicists and computational physicists, who together are beginning to unravel the story of these exquisitely designed biomolecules. With chapters by leading experts, the book is aimed at researchers in nanodevices and biosensors, as well as advanced undergraduate and graduate students in biology and the physical sciences. Key Features Presents the latest information on the molecular mechanisms of ion permeation through membrane ion channels Uses schematic diagrams to illustrate important concepts in biophysics Written by leading researchers in the area of ion channel investigations

  1. Axial channeling of boron ions into silicon

    La Ferla, A.; Galvagno, G.; Raineri, V.; Setola, R.; Rimini, E.; Carbera, A.; Gasparotto, A.

    1992-04-01

    Channeling boron implants were performed into (100) and (110) silicon substrates in the energy range 80-700 keV. The dose ranged between 3.5 × 10 11 and 1 × 10 15 atoms/cm 2. The axial channeling concentration profiles of implanted B + were compared with that obtained for incidence along the random direction of the crystal and with that obtained by implantation in amorphous silicon. The electrical and chemical boron distributions were obtained by spreading resistance and secondary ion mass spectrometry measurements, respectively. The inelastic stopping power, Sc, was extracted from the experimental maximum ranges for the [100] and [110] axis. The energ dependence of the electronic stopping power is given by Sc = KEp with p[100] = 0.469±0.010 and p[110] = 0.554±0.004. Simulations obtained by the MARLOWE code, using the Oen-Robinson impact parameter dependent formula, for the electronic energy loss reproduce quite well the experimental depth profiles.

  2. Axial channeling of boron ions into silicon

    Channeling boron implants were performed into (100) and (110) silicon substrates in the energy range 80-700 keV. The dose ranged between 3.5x1011 and 1x1015 atoms/cm2. The axial channeling concentration profiles of implanted B+ were compared with that obtained for incidence along the random direction of the crystal and with that obtained by implantation in amorphous silicon. The electrical and chemical boron distributions were obtained by spreading resistance and secondary ion mass spectrometry measurements, respectively. The inelastic stopping power, Sc, was extracted from the experimental maximum ranges for the [100] and [110] axis. The energy dependence of the electronic stopping power is given by Se = KEp with p[100] = 0.469±0.010 and p[110] = 0.554±0.004. Simulations obtained by the MARLOWE code, using the Oen-Robinson impact parameter dependent formula, for the electronic energy loss reproduce quite well the experimental depth profiles. (orig.)

  3. Axial channeling of boron ions into silicon

    La Ferla, A.; Galvagno, G. (Ist. di Tecnologie e Metodologie per la Microelettronica, CNR, Dipt. di Fisica, Catania (Italy)); Raineri, V.; Setola, R.; Rimini, E. (Dipt. di Fisica, Univ. di Catania (Italy)); Carnera, A.; Gasparotto, A. (Dipt. di Fisica, Univ. di Padova (Italy))

    1992-04-01

    Channeling boron implants were performed into (100) and (110) silicon substrates in the energy range 80-700 keV. The dose ranged between 3.5x10{sup 11} and 1x10{sup 15} atoms/cm{sup 2}. The axial channeling concentration profiles of implanted B{sup +} were compared with that obtained for incidence along the random direction of the crystal and with that obtained by implantation in amorphous silicon. The electrical and chemical boron distributions were obtained by spreading resistance and secondary ion mass spectrometry measurements, respectively. The inelastic stopping power, S{sub c}, was extracted from the experimental maximum ranges for the (100) and (110) axis. The energy dependence of the electronic stopping power is given by S{sub e} = KE{sup p} with p{sub (100)} = 0.469{+-}0.010 and p{sub (110)} = 0.554{+-}0.004. Simulations obtained by the MARLOWE code, using the Oen-Robinson impact parameter dependent formula, for the electronic energy loss reproduce quite well the experimental depth profiles. (orig.).

  4. From Brownian Dynamics to Markov Chain: An Ion Channel Example

    Chen, Wan

    2014-02-27

    A discrete rate theory for multi-ion channels is presented, in which the continuous dynamics of ion diffusion is reduced to transitions between Markovian discrete states. In an open channel, the ion permeation process involves three types of events: an ion entering the channel, an ion escaping from the channel, or an ion hopping between different energy minima in the channel. The continuous dynamics leads to a hierarchy of Fokker-Planck equations, indexed by channel occupancy. From these the mean escape times and splitting probabilities (denoting from which side an ion has escaped) can be calculated. By equating these with the corresponding expressions from the Markov model, one can determine the Markovian transition rates. The theory is illustrated with a two-ion one-well channel. The stationary probability of states is compared with that from both Brownian dynamics simulation and the hierarchical Fokker-Planck equations. The conductivity of the channel is also studied, and the optimal geometry maximizing ion flux is computed. © 2014 Society for Industrial and Applied Mathematics.

  5. The Control of Male Fertility by Spermatozoan Ion Channels

    Lishko, Polina V.; Kirichok, Yuriy; Ren, Dejian; Navarro, Betsy; Chung, Jean-Ju

    2014-01-01

    Ion channels control the sperm ability to fertilize the egg by regulating sperm maturation in the female reproductive tract and by triggering key sperm physiological responses required for successful fertilization such as hyperactivated motility, chemotaxis, and the acrosome reaction. CatSper, a pH-regulated, calcium-selective ion channel, and KSper (Slo3) are core regulators of sperm tail calcium entry and sperm hyperactivated motility. Many other channels had been proposed as regulating sperm activity without direct measurements. With the development of the sperm patch-clamp technique, CatSper and KSper have been confirmed as the primary spermatozoan ion channels. In addition, the voltage-gated proton channel Hv1 has been identified in human sperm tail, and the P2X2 ion channel has been identified in the midpiece of mouse sperm. Mutations and deletions in sperm-specific ion channels affect male fertility in both mice and humans without affecting other physiological functions. The uniqueness of sperm ion channels makes them ideal pharmaceutical targets for contraception. In this review we discuss how ion channels regulate sperm physiology. PMID:22017176

  6. A 0-Memory Model for Single Ion Channel

    Zhou Wenqing; Fan Jiqian; Guan Yongyuan

    1998-01-01

    This paper discusses a 0-memory model for a single ion channel. The renewal rates of the open-class and the close-class are proposed to deseribe kinetic properties of a single ion channel. Further more, a procedure to estimate the parameters in the model is suggested and illustrated with examples in pharmacology.

  7. Ion channel recordings on an injection-molded polymer chip

    Tanzi, Simone; Matteucci, Marco; Christiansen, Thomas Lehrmann;

    2013-01-01

    In this paper, we demonstrate recordings of the ion channel activity across the cell membrane in a biological cell by employing the so-called patch clamping technique on an injection-molded polymer microfluidic device. The findings will allow direct recordings of ion channel activity to be made u...

  8. Energetics of ion conduction through the K+ channel

    Bernèche, Simon; Roux, Benoît

    2001-11-01

    K+ channels are transmembrane proteins that are essential for the transmission of nerve impulses. The ability of these proteins to conduct K+ ions at levels near the limit of diffusion is traditionally described in terms of concerted mechanisms in which ion-channel attraction and ion-ion repulsion have compensating effects, as several ions are moving simultaneously in single file through the narrow pore. The efficiency of such a mechanism, however, relies on a delicate energy balance-the strong ion-channel attraction must be perfectly counterbalanced by the electrostatic ion-ion repulsion. To elucidate the mechanism of ion conduction at the atomic level, we performed molecular dynamics free energy simulations on the basis of the X-ray structure of the KcsA K+ channel. Here we find that ion conduction involves transitions between two main states, with two and three K+ ions occupying the selectivity filter, respectively; this process is reminiscent of the `knock-on' mechanism proposed by Hodgkin and Keynes in 1955. The largest free energy barrier is on the order of 2-3kcalmol-1, implying that the process of ion conduction is limited by diffusion. Ion-ion repulsion, although essential for rapid conduction, is shown to act only at very short distances. The calculations show also that the rapidly conducting pore is selective.

  9. Novel perspectives in cancer therapy: Targeting ion channels.

    Arcangeli, Annarosa; Becchetti, Andrea

    2015-01-01

    By controlling ion fluxes at multiple time scales, ion channels shape rapid cell signals, such as action potential and synaptic transmission, as well as much slower processes, such as mitosis and cell migration. As is currently increasingly recognized, a variety of channel types are involved in cancer hallmarks, and regulate specific stages of neoplastic progression. Long-term in vitro work has established that inhibition of these ion channels impairs the growth of cancer cells. Recently, these studies have been followed up in vivo, hence revealing that ion channels constitute promising pharmacological targets in oncology. The channel proteins can be often accessed from the extracellular milieu, which allows use of lower drug doses and decrease untoward toxicity. However, because of the central physiological roles exerted by ion channels in excitable cells, other types of side effects may arise, the gravest of which is cardiac arrhythmia. A paradigmatic case is offered by Kv11.1 (hERG1) channels. HERG1 blockers attenuate the progression of both hematologic malignancies and solid tumors, but may also lead to the lengthening of the electrocardiographic QT interval, thus predisposing the patient to ventricular arrhythmias. These side effects can be avoided by specifically inhibiting the channel isoforms which are highly expressed in certain tumors, such as Kv11.1B and the neonatal forms of voltage-gated Na(+) channels. Preclinical studies are also being explored in breast and prostate cancer (targeting voltage-gated Na(+) channels), and gliomas (targeting CLC-3). Overall, the possible approaches to improve the efficacy and safety of ion channel targeting in oncology include: (1) the development of specific inhibitors for the channel subtypes expressed in specific tumors; (2) drug delivery into the tumor by using antibodies or nanotechnology-based approaches; (3) combination regimen therapy and (4) blocking specific conformational states of the ion channel. We believe

  10. Ion Channels in Obesity: Pathophysiology and Potential Therapeutic Targets.

    Vasconcelos, Luiz H C; Souza, Iara L L; Pinheiro, Lílian S; Silva, Bagnólia A

    2016-01-01

    Obesity is a multifactorial disease related to metabolic disorders and associated with genetic determinants. Currently, ion channels activity has been linked to many of these disorders, in addition to the central regulation of food intake, energetic balance, hormone release and response, as well as the adipocyte cell proliferation. Therefore, the objective of this work is to review the current knowledge about the influence of ion channels in obesity development. This review used different sources of literature (Google Scholar, PubMed, Scopus, and Web of Science) to assess the role of ion channels in the pathophysiology of obesity. Ion channels present diverse key functions, such as the maintenance of physiological homeostasis and cell proliferation. Cell biology and pharmacological experimental evidences demonstrate that proliferating cells exhibit ion channel expression, conductance, and electrical properties different from the resting cells. Thereby, a large variety of ion channels has been identified in the pathogenesis of obesity such as potassium, sodium, calcium and chloride channels, nicotinic acetylcholine receptor and transient receptor potential channels. The fundamental involvement of these channels on the generation of obesity leads to the progress in the knowledge about the mechanisms responsible for the obesity pathophysiology, consequently emerging as new targets for pharmacological modulation. PMID:27065858

  11. Ion Channels in Obesity: Pathophysiology and Potential Therapeutic Targets

    LUIZ HENRIQUE CÉSAR VASCONCELOS

    2016-03-01

    Full Text Available Obesity is a multifactorial disease related to metabolic disorders and associated with genetic determinants. Currently, ion channels activity has been linked to many of these disorders, in addition to the central regulation of food intake, energetic balance, hormone release and response, as well as the adipocyte cell proliferation. Therefore, the objective of this work is to review the current knowledge about the influence of ion channels in obesity development. This review used different sources of literature (Google Scholar, PubMed, Scopus and Web of Science to assess the role of ion channels in the pathophysiology of obesity. Ion channels present diverse key functions, such as the maintenance of physiological homeostasis and cell proliferation. Cell biology and pharmacological experimental evidences demonstrate that proliferating cells exhibit ion channel expression, conductance and electrical properties different from the resting cells. Thereby, a large variety of ion channels has been identified in the pathogenesis of obesity such as potassium, sodium, calcium and chloride channels, nicotinic acetylcholine receptor and transient receptor potential channels. The fundamental involvement of these channels on the generation of obesity leads to the progress in the knowledge about the mechanisms responsible for the obesity pathophysiology, consequently emerging as new targets for pharmacological modulation.

  12. Microscopic model for selective permeation in ion channels.

    Wu, J.

    1991-01-01

    Ionic permeation in the selectivity filter of ion channels is analyzed by a microscopic model based on molecular kinetic theory. The energy and flux equations are derived by assuming that: (a) the selectivity filter is formed by a symmetrical array of carbonyl groups; (b) ion movement is near the axis of the channel; (c) a fraction of water molecules is separated from the ion while it moves across the selectivity filter; (d) the applied voltage drops linearly across the selectivity filter; (e...

  13. Differential regulation of proton-sensitive ion channels by phospholipids: a comparative study between ASICs and TRPV1.

    Hae-Jin Kweon

    Full Text Available Protons are released in pain-generating pathological conditions such as inflammation, ischemic stroke, infection, and cancer. During normal synaptic activities, protons are thought to play a role in neurotransmission processes. Acid-sensing ion channels (ASICs are typical proton sensors in the central nervous system (CNS and the peripheral nervous system (PNS. In addition to ASICs, capsaicin- and heat-activated transient receptor potential vanilloid 1 (TRPV1 channels can also mediate proton-mediated pain signaling. In spite of their importance in perception of pH fluctuations, the regulatory mechanisms of these proton-sensitive ion channels still need to be further investigated. Here, we compared regulation of ASICs and TRPV1 by membrane phosphoinositides, which are general cofactors of many receptors and ion channels. We observed that ASICs do not require membrane phosphatidylinositol 4-phosphate (PI(4P or phosphatidylinositol 4,5-bisphosphate (PI(4,5P2 for their function. However, TRPV1 currents were inhibited by simultaneous breakdown of PI(4P and PI(4,5P2. By using a novel chimeric protein, CF-PTEN, that can specifically dephosphorylate at the D3 position of phosphatidylinositol 3,4,5-trisphosphate (PI(3,4,5P3, we also observed that neither ASICs nor TRPV1 activities were altered by depletion of PI(3,4,5P3 in intact cells. Finally, we compared the effects of arachidonic acid (AA on two proton-sensitive ion channels. We observed that AA potentiates the currents of both ASICs and TRPV1, but that they have different recovery aspects. In conclusion, ASICs and TRPV1 have different sensitivities toward membrane phospholipids, such as PI(4P, PI(4,5P2, and AA, although they have common roles as proton sensors. Further investigation about the complementary roles and respective contributions of ASICs and TRPV1 in proton-mediated signaling is necessary.

  14. VGIchan: Prediction and Classification of Voltage-Gated Ion Channels

    Sudipto Saha; Jyoti Zack; Balvinder Singh; G.P.S. Raghava

    2006-01-01

    This study describes methods for predicting and classifying voltage-gated ion channels. Firstly, a standard support vector machine (SVM) method was developed for predicting ion channels by using amino acid composition and dipeptide composition, with an accuracy of 82.89% and 85.56%, respectively. The accuracy of this SVM method was improved from 85.56% to 89.11% when combined with PSIBLAST similarity search. Then we developed an SVM method for classifying ion channels (potassium, sodium, calcium, and chloride) by using dipeptide composition and achieved an overall accuracy of 96.89%. We further achieved a classification accuracy of 97.78% by using a hybrid method that combines dipeptidebased SVM and hidden Markov model methods. A web server VGIchan has been developed for predicting and classifying voltage-gated ion channels using the above approaches. VGIchan is freely available at www.imtech.res.in/raghava/vgichan/.

  15. Mining recent brain proteomic databases for ion channel phosphosite nuggets

    Cerda, Oscar; Baek, Je-Hyun; Trimmer, James S.

    2011-01-01

    Voltage-gated ion channels underlie electrical activity of neurons and are dynamically regulated by diverse cell signaling pathways that alter their phosphorylation state. Recent global mass spectrometric–based analyses of the mouse brain phosphoproteome have yielded a treasure trove of new data as to the extent and nature of phosphorylation of numerous ion channel principal or α subunits in mammalian brain. Here we compile and review data on 347 phosphorylation sites (261 unique) on 42 diffe...

  16. Antibody therapeutics targeting ion channels: are we there yet?

    Sun, Han; Li, Min

    2013-01-01

    The combination of technological advances, genomic sequences and market success is catalyzing rapid development of antibody-based therapeutics. Cell surface receptors and ion channel proteins are well known drug targets, but the latter has seen less success. The availability of crystal structures, better understanding of gating biophysics and validation of physiological roles now form an excellent foundation to pursue antibody-based therapeutics targeting ion channels to treat a variety of diseases. PMID:23381110

  17. Antibody therapeutics targeting ion channels:are we there yet?

    Han SUN; Min LI

    2013-01-01

    The combination of technological advances,genomic sequences and market success is catalyzing rapid development of antibodybased therapeutics.Cell surface receptors and ion channel proteins are well known drug targets,but the latter has seen less success.The availability of crystal structures,better understanding of gating biophysics and validation of physiological roles now form an excellent foundation to pursue antibody-based therapeutics targeting ion channels to treat a variety of diseases.

  18. Ion Channels in Obesity: Pathophysiology and Potential Therapeutic Targets

    LUIZ HENRIQUE CÉSAR VASCONCELOS; IARA LEÃO LUNA DE SOUZA; LILIAN SOUSA PINHEIRO; BAGNÓLIA ARAÚJO DA SILVA

    2016-01-01

    Obesity is a multifactorial disease related to metabolic disorders and associated with genetic determinants. Currently, ion channels activity has been linked to many of these disorders, in addition to the central regulation of food intake, energetic balance, hormone release and response, as well as the adipocyte cell proliferation. Therefore, the objective of this work is to review the current knowledge about the influence of ion channels in obesity development. This review used different sou...

  19. Electrokinetic inversion of ion screening charges in nano-channels

    Zhu, Xin; Ni, Sheng; Zhang, Xingye; Liu, Yang

    2016-01-01

    This work studies a counter-intuitive but basic process of ionic screening in nano-fluidic channels. Numerical simulations and perturbation analysis reveal that, under significant electrokinetic transport, the ion screening charges can be locally inverted in the channels: their charge sign becomes the same as that of the channel surface charges. The process is identified to originate from the coupling of longitudinal transport and junction electrostatics. This finding may revise the common understanding of ionic screening in nano-channels and indicates that their ion selectivity can be locally changed by transport. Furthermore, the charge inversion process results in a body force torque on channel fluids, which is a possible mechanism for vortex generation in the channels.

  20. Tuning the ion selectivity of tetrameric cation channels by changing the number of ion binding sites

    Derebe, Mehabaw G.; Sauer, David B.; Zeng, Weizhong; Alam, Amer; Shi, Ning; Jiang, Youxing (UTSMC); (ETH Zurich)

    2015-11-30

    Selective ion conduction across ion channel pores is central to cellular physiology. To understand the underlying principles of ion selectivity in tetrameric cation channels, we engineered a set of cation channel pores based on the nonselective NaK channel and determined their structures to high resolution. These structures showcase an ensemble of selectivity filters with a various number of contiguous ion binding sites ranging from 2 to 4, with each individual site maintaining a geometry and ligand environment virtually identical to that of equivalent sites in K{sup +} channel selectivity filters. Combined with single channel electrophysiology, we show that only the channel with four ion binding sites is K{sup +} selective, whereas those with two or three are nonselective and permeate Na{sup +} and K{sup +} equally well. These observations strongly suggest that the number of contiguous ion binding sites in a single file is the key determinant of the channel's selectivity properties and the presence of four sites in K{sup +} channels is essential for highly selective and efficient permeation of K{sup +} ions.

  1. Emerging Families of Ion Channels Involved in Urinary Bladder Nociception

    Yusaku Okada

    2010-07-01

    Full Text Available The expression of multiple ion channels and receptors is essential for nociceptors to detect noxious stimuli of a thermal, mechanical or chemical nature. The peripheral sensory transduction systems of the urinary bladder include sensory nerve endings, urothelial cells and others whose location is suitable for transducing mechanical and chemical stimuli. There is an increasing body of evidence implicating the Deg/ENaC and TRP channel families in the control of bladder afferent excitability under physiological and pathological conditions. Pharmacological interventions targeting these ion channels may provide a new strategy for the treatment of pathological bladder sensation and pain.

  2. Na+ channel β subunits: Overachievers of the ion channel family

    LoriLIsom; WilliamJBrackenbury

    2011-01-01

    Voltage gated Na+ channels (VGSCs) in mammals contain a pore-forming α subunit and one or more β subunits. There are five mammalian β subunits in total: β1, β1B, β2, β3, and β4, encoded by four genes: SCN1B-SCN4B. With the exception of the SCN1B splice variant, β1B, the β subunits are type I topology transmembrane proteins. In contrast, β1B lacks a transmembrane domain and is a secreted protein. A growing body of work shows that VGSC β subunits are multifunctional. While they do not form the...

  3. Symposia for a Meeting on Ion Channels and Gap Junctions

    Sáez, Juan

    1997-01-01

    Ion channels allow us to see nature in all its magnificence, to hear a Bach suite, to smell the aroma of grandmother's cooking, and, in this regard, they put us in contact with the external world. These ion channels are protein molecules located in the cell membrane. In complex organisms, cells need to communicate in order to know about their metabolic status and to act in a coordinate manner. The latter is also accomplished by a class of ion channels able to pierce the lipid bilayer membranes of two adjacent cells. These intercellular channels are the functional subunits of gap junctions. Accordingly, the book is divided in two parts: the first part is dedicated to ion channels that look to the external world, and the second part is dedicated to gap junctions found at cell interfaces. This book is based on a series of symposia for a meeting on ion channels and gap junctions held in Santiago, Chile, on November 28-30, 1995. The book should be useful to graduate students taking the first steps in this field as...

  4. Emerging approaches to probing ion channel structure and function

    Wei-Guang Li; Tian-Le Xu

    2012-01-01

    Ion channels,as membrane proteins,are the sensors of the cell.They act as the first line of communication with the world beyond the plasma membrane and transduce changes in the external and internal environments into unique electrical signals to shape the responses of excitable cells.Because of their importance in cellular communication,ion channels have been intensively studied at the structural and functional levels.Here,we summarize the diverse approaches,including molecular and cellular,chemical,optical,biophysical,and computational,used to probe the structural and functional rearrangements that occur during channel activation (or sensitization),inactivation (or desensitization),and various forms of modulation.The emerging insights into the structure and function of ion channels by multidisciplinary approaches allow the development of new pharmacotherapies as well as new tools useful in controlling cellular activity.

  5. Is ion channel selectivity mediated by confined water?

    Prada-Gracia, Diego; Rao, Francesco

    2012-01-01

    Ion channels form pores across the lipid bilayer, selectively allowing inorganic ions to cross the membrane down their electrochemical gradient. While the study of ion desolvation free-energies have attracted much attention, the role of water inside the pore is less clear. Here, molecular dynamics simulations of a reduced model of the KcsA selectivity filter indicate that the equilibrium position of Na+, but not of K+, is strongly influenced by confined water. The latter forms a stable comple...

  6. Channeling of low energy heavy ions: Er in Si

    Channeled implantation of 80 keV Er ions into Si(111) has been investigated as a function of the angle between the ion beam and the normal axis. The angular dependence of both the projected range and the crystalline quality of the resulting silicide shows excellent agreement with theoretical predictions and simulations. Simulations indicate that the critical angle for channeling is largely independent of substrate temperature. The postimplantation strain in the silicide layer is determined by irradiation-induced damage and therefore increases with the angle between the crystalline axis and the ion beam direction

  7. [Interaction of melittin with ion channels of excitable membranes].

    Zherelova, O M; Kabanova, N V; Kazachenko, V N; Chaĭlakhian, L M

    2007-01-01

    The effect of the neurotoxin melittin on the activation of ion channels of excitable membrane, the plasmalemma of Characeae algae cells, isolated membrane patches of neurons of mollusc L. stagnalis and Vero cells was studied by the method of intracellular perfusion and the patch-clamp technique in inside-out configuration. It was shown that melittin disturbs the conductivity of plasmalemma and modifieds Ca(2+)-channels of plant membrane. The leakage current that appears by the action of melittin can be restored by substituting calmodulin for melittin. Melittin modifies K(+)-channels of animal cell membrane by disrupting the phospholipid matrix and forms conductive structures in the membrane by interacting with channel proteins, which is evidenced by the appearance of additional ion channels. PMID:17477057

  8. Functional Insights from Glutamate Receptor Ion Channel Structures

    Kumar, Janesh; Mayer, Mark L.

    2014-01-01

    X-ray crystal structures for the soluble amino terminal and ligand binding domains of glutamate receptor ion channels, combined with a 3.6 Å resolution structure of the full length AMPA receptor GluA2 homotetramer, provide unique insights into the mechanisms of iGluR assembly and function. Increasingly sophisticated biochemical, computational and electrophysiological experiments are beginning to reveal the mechanism of action of partial agonists, and yield new models for the mechanism of action of allosteric modulators. Newly identified NMDA receptor ligands acting at novel sites offer hope for development of subtype selective modulators. Many issues remain unsolved, including the role of the ATD in AMPA receptor signaling, and the mechanisms by which auxiliary proteins regulate receptor activity. The structural basis for ion permeation and ion channel block also remain areas of uncertainty, and despite substantial progress, molecular dynamics simulations have yet to reveal how binding of glutamate opens the ion channel pore. PMID:22974439

  9. The role of ion channels and intracellular metal ions in apoptosis of Xenopus oocytes

    Englund, Ulrika

    2014-01-01

    Apoptosis is one type of programmed cell death, important during tissue development and to maintain the tissue homeostasis. Apoptosis comprises a complex network of internal signaling pathways, and an important part of this signaling network is the action of voltage‐gated ion channels. The aim of this thesis was to explore the role of ion channels and the role of intracellular metal ions during apoptosis in Xenopus laevis oocytes. The reasons for using these oocytes are that they are large, r...

  10. Ion fluxes through nanopores and transmembrane channels

    Bordin, J. R.; Diehl, A.; Barbosa, M. C.; Levin, Y.

    2012-03-01

    We introduce an implicit solvent Molecular Dynamics approach for calculating ionic fluxes through narrow nanopores and transmembrane channels. The method relies on a dual-control-volume grand-canonical molecular dynamics (DCV-GCMD) simulation and the analytical solution for the electrostatic potential inside a cylindrical nanopore recently obtained by Levin [Europhys. Lett.EULEEJ0295-507510.1209/epl/i2006-10240-4 76, 163 (2006)]. The theory is used to calculate the ionic fluxes through an artificial transmembrane channel which mimics the antibacterial gramicidin A channel. Both current-voltage and current-concentration relations are calculated under various experimental conditions. We show that our results are comparable to the characteristics associated to the gramicidin A pore, especially the existence of two binding sites inside the pore and the observed saturation in the current-concentration profiles.

  11. Emergence of ion channel modal gating from independent subunit kinetics.

    Bicknell, Brendan A; Goodhill, Geoffrey J

    2016-09-01

    Many ion channels exhibit a slow stochastic switching between distinct modes of gating activity. This feature of channel behavior has pronounced implications for the dynamics of ionic currents and the signaling pathways that they regulate. A canonical example is the inositol 1,4,5-trisphosphate receptor (IP3R) channel, whose regulation of intracellular Ca(2+) concentration is essential for numerous cellular processes. However, the underlying biophysical mechanisms that give rise to modal gating in this and most other channels remain unknown. Although ion channels are composed of protein subunits, previous mathematical models of modal gating are coarse grained at the level of whole-channel states, limiting further dialogue between theory and experiment. Here we propose an origin for modal gating, by modeling the kinetics of ligand binding and conformational change in the IP3R at the subunit level. We find good agreement with experimental data over a wide range of ligand concentrations, accounting for equilibrium channel properties, transient responses to changing ligand conditions, and modal gating statistics. We show how this can be understood within a simple analytical framework and confirm our results with stochastic simulations. The model assumes that channel subunits are independent, demonstrating that cooperative binding or concerted conformational changes are not required for modal gating. Moreover, the model embodies a generally applicable principle: If a timescale separation exists in the kinetics of individual subunits, then modal gating can arise as an emergent property of channel behavior. PMID:27551100

  12. Is ion channel selectivity mediated by confined water?

    Prada-Gracia, Diego

    2012-01-01

    Ion channels form pores across the lipid bilayer, selectively allowing inorganic ions to cross the membrane down their electrochemical gradient. While the study of ion desolvation free-energies have attracted much attention, the role of water inside the pore is less clear. Here, molecular dynamics simulations of a reduced model of the KcsA selectivity filter indicate that the equilibrium position of Na+, but not of K+, is strongly influenced by confined water. The latter forms a stable complex with Na+, moving the equilibrium position of the ion to the plane of the backbone carbonyls. Almost at the centre of the binding site, the water molecule is trapped by favorable electrostatic interactions and backbone hydrogen-bonds. In the absence of confined water the equilibrium position of both Na+ and K+ is identical. Our observations strongly suggest a previously unnoticed active role of confined water in the selectivity mechanism of ion channels.

  13. Ion channels modulating mouse dendritic cell functions.

    Matzner, Nicole; Zemtsova, Irina M; Nguyen, Thi Xuan; Duszenko, Michael; Shumilina, Ekaterina; Lang, Florian

    2008-11-15

    Ca(2+)-mediated signal transduction pathways play a central regulatory role in dendritic cell (DC) responses to diverse Ags. However, the mechanisms leading to increased [Ca(2+)](i) upon DC activation remained ill-defined. In the present study, LPS treatment (100 ng/ml) of mouse DCs resulted in a rapid increase in [Ca(2+)](i), which was due to Ca(2+) release from intracellular stores and influx of extracellular Ca(2+) across the cell membrane. In whole-cell voltage-clamp experiments, LPS-induced currents exhibited properties similar to the currents through the Ca(2+) release-activated Ca(2+) channels (CRAC). These currents were highly selective for Ca(2+), exhibited a prominent inward rectification of the current-voltage relationship, and showed an anomalous mole fraction and a fast Ca(2+)-dependent inactivation. In addition, the LPS-induced increase of [Ca(2+)](i) was sensitive to margatoxin and ICAGEN-4, both inhibitors of voltage-gated K(+) (Kv) channels Kv1.3 and Kv1.5, respectively. MHC class II expression, CCL21-dependent migration, and TNF-alpha and IL-6 production decreased, whereas phagocytic capacity increased in LPS-stimulated DCs in the presence of both Kv channel inhibitors as well as the I(CRAC) inhibitor SKF-96365. Taken together, our results demonstrate that Ca(2+) influx in LPS-stimulated DCs occurs via Ca(2+) release-activated Ca(2+) channels, is sensitive to Kv channel activity, and is in turn critically important for DC maturation and functions. PMID:18981098

  14. Voltage-Sensitive Ion Channels Biophysics of Molecular Excitability

    Leuchtag, H. Richard

    2008-01-01

    Voltage-sensitive ion channels are macromolecules embedded in the membranes of nerve and muscle fibers of animals. Because of their physiological functions, biochemical structures and electrical switching properties, they are at an intersection of biology, chemistry and physics. Despite decades of intensive research under the traditional approach of gated structural pores, the relation between the structure of these molecules and their function remains enigmatic. This book critically examines physically oriented approaches not covered in other ion-channel books. It looks at optical and thermal as well as electrical data, and at studies in the frequency domain as well as in the time domain. Rather than presenting the reader with only an option of mechanistic models at an inappropriate pseudo-macroscopic scale, it emphasizes concepts established in organic chemistry and condensed state physics. The book’s approach to the understanding of these unique structures breaks with the unproven view of ion channels as...

  15. Effects of monoterpenes on ion channels of excitable cells.

    Oz, Murat; Lozon, Yosra; Sultan, Ahmed; Yang, Keun-Hang Susan; Galadari, Sehamuddin

    2015-08-01

    Monoterpenes are a structurally diverse group of phytochemicals and a major constituent of plant-derived 'essential oils'. Monoterpenes such as menthol, carvacrol, and eugenol have been utilized for therapeutical purposes and food additives for centuries and have been reported to have anti-inflammatory, antioxidant and analgesic actions. In recent years there has been increasing interest in understanding the pharmacological actions of these molecules. There is evidence indicating that monoterpenes can modulate the functional properties of several types of voltage and ligand-gated ion channels, suggesting that some of their pharmacological actions may be mediated by modulations of ion channel function. In this report, we review the literature concerning the interaction of monoterpenes with various ion channels. PMID:25956464

  16. Ion channeling study of defects in multicomponent semiconductor compounds

    Compound semiconductor crystals are of great technological importance as basic materials for production of modern opto- and microelectronic devices. Ion implantation is one of the principal techniques for heterostructures processing. This paper reports the results of the study of defect formation and transformation in binary and ternary semiconductor compounds subjected to ion implantation with ions of different mass and energy. The principal analytical technique was He-ion channeling. The following materials were studied: GaN and InGaN epitaxial layers. First the semi empirical method of channeling spectra analysis for ion implanted multicomponent single crystal was developed. This method was later complemented by the more sophisticated method based on the Monte Carlo simulation of channeling spectra. Next, the damage buildup in different crystals and epitaxial layers as a function of the implantation dose was studied for N, Mg, Te, and Kr ions. The influence of the substrate temperature on the defect transformations was studied for GaN epitaxial layers implanted with Mg ions. Special attention was devoted to the study of growth conditions of InGaN/GaN/sapphire heterostructures, which are important component of the future blue laser diodes. In-atom segregation and tetragonal distortion of the epitaxial layer were observed and characterized. Next problem studied was the incorporation of hydrogen atoms in GaAs and GaN. Elastic recoil detection (ERDA) and nuclear reaction analysis (NRA) were applied for the purpose. (author)

  17. Identification and characterization of a bacterial hydrosulphide ion channel

    Czyzewski, Bryan K.; Wang, Da-Neng (NYUSM)

    2012-10-26

    The hydrosulphide ion (HS{sup -}) and its undissociated form, hydrogen sulphide (H{sub 2}S), which are believed to have been critical to the origin of life on Earth, remain important in physiology and cellular signalling. As a major metabolite in anaerobic bacterial growth, hydrogen sulphide is a product of both assimilatory and dissimilatory sulphate reduction. These pathways can reduce various oxidized sulphur compounds including sulphate, sulphite and thiosulphate. The dissimilatory sulphate reduction pathway uses this molecule as the terminal electron acceptor for anaerobic respiration, in which process it produces excess amounts of H{sub 2}S. The reduction of sulphite is a key intermediate step in all sulphate reduction pathways. In Clostridium and Salmonella, an inducible sulphite reductase is directly linked to the regeneration of NAD{sup +}, which has been suggested to have a role in energy production and growth, as well as in the detoxification of sulphite. Above a certain concentration threshold, both H{sub 2}S and HS{sup -} inhibit cell growth by binding the metal centres of enzymes and cytochrome oxidase, necessitating a release mechanism for the export of this toxic metabolite from the cell. Here we report the identification of a hydrosulphide ion channel in the pathogen Clostridium difficile through a combination of genetic, biochemical and functional approaches. The HS{sup -} channel is a member of the formate/nitrite transport family, in which about 50 hydrosulphide ion channels form a third subfamily alongside those for formate (FocA) and for nitrite (NirC). The hydrosulphide ion channel is permeable to formate and nitrite as well as to HS{sup -} ions. Such polyspecificity can be explained by the conserved ion selectivity filter observed in the channel's crystal structure. The channel has a low open probability and is tightly regulated, to avoid decoupling of the membrane proton gradient.

  18. Energy losses of channeled ions: the BOHR theory revisited

    Theoretical models are presented based on the impact parameter picture for the energy losses of channeled ions. The conceptual simplicity afforded by such an approach is quite appealing. In addition, it is found that calculations based on these models provide reasonable predictions for, and agreement with, a variety of experimental data. A useful approach is provided for meeting the challenges to theory afforded by experimental measurements on channeling phenomena

  19. Ionic Coulomb Blockade and Resonant Conduction in Biological Ion Channels

    Kaufman, I Kh; Eisenberg, R S

    2014-01-01

    The conduction and selectivity of calcium/sodium ion channels are described in terms of ionic Coulomb blockade, a phenomenon based on charge discreteness and an electrostatic model of an ion channel. This novel approach provides a unified explanation of numerous observed and modelled conductance and selectivity phenomena, including the anomalous mole fraction effect and discrete conduction bands. Ionic Coulomb blockade and resonant conduction are similar to electronic Coulomb blockade and resonant tunnelling in quantum dots. The model is equally applicable to other nanopores.

  20. Ion Channels and Zinc: Mechanisms of Neurotoxicity and Neurodegeneration

    Deborah R. Morris

    2012-01-01

    Full Text Available Ionotropic glutamate receptors, such as NMDA, AMPA and kainate receptors, are ligand-gated ion channels that mediate much of the excitatory neurotransmission in the brain. Not only do these receptors bind glutamate, but they are also regulated by and facilitate the postsynaptic uptake of the trace metal zinc. This paper discusses the role of the excitotoxic influx and accumulation of zinc, the mechanisms responsible for its cytotoxicity, and a number of disorders of the central nervous system that have been linked to these neuronal ion channels and zinc toxicity including ischemic brain injury, traumatic brain injury, and epilepsy.

  1. Briefing in Application of Machine Learning Methods in Ion Channel Prediction

    Hao Lin

    2015-01-01

    Full Text Available In cells, ion channels are one of the most important classes of membrane proteins which allow inorganic ions to move across the membrane. A wide range of biological processes are involved and regulated by the opening and closing of ion channels. Ion channels can be classified into numerous classes and different types of ion channels exhibit different functions. Thus, the correct identification of ion channels and their types using computational methods will provide in-depth insights into their function in various biological processes. In this review, we will briefly introduce and discuss the recent progress in ion channel prediction using machine learning methods.

  2. Contribution of Automated Technologies to Ion Channel Drug Discovery.

    Picones, Arturo; Loza-Huerta, Arlet; Segura-Chama, Pedro; Lara-Figueroa, Cesar O

    2016-01-01

    Automated technologies are now resolving the historical relegation that ion channels have endured as targets for the new drug discovery and development global efforts. The richness and adequacy of functional assay methodologies, remarkably fluorescence-based detection of ions fluxes and patch-clamp electrophysiology recording of ionic currents, are now automated and increasingly employed for the analysis of ion channel activity. While the former is currently the most commonly applied, the latter is finally reaching the throughput capacity to be engaged in the primary screening of chemical libraries conformed by hundreds of thousands of compounds. The use of automated instrumentation for the study of ion channel functionality (and dysfunctionality), particularly in the search for novel pharmacological agents with therapeutic purposes, has now reached out beyond the industrial setting, its original natural enclave, and is making its way into a growing number of academic labs and core facilities. The present chapter reviews the increasing contributions accomplished by a variety of different key automated technologies which have revolutionized the strategies to approach the discovery and development of new drugs targeting ion channels. PMID:27038379

  3. Channeling implants of B ions into <100> silicon surfaces

    Rainaeri, V.; Galvagno, G.; Rimini, E. (Catania Univ. (Italy). Ist. di Fisica); Biersack, J.P.; Nakagawa, S.T. (Erlangen Univ. (Germany). Lehrstuhl Elektronische Bauelement); La Ferla, A. (Istituto di Metodologie e Tecnologie per la Microelettronica, Catania (Italy)); Carnera, A. (Padua Univ. (Italy). Ist. di Fisica)

    1991-01-01

    The profiles of boron ions impinging along the <100> axis of silicon single crystal at energies in the 80-700 keV range were measured by SIMS. By a simple subtraction procedure the distributions for aligned incidence of the beam were decomposed into a random and into a channeled profile. The corresponding mean ranges, R{sub r}, for random and R{sub c} for channeled particles, as well as the ''maximum'' range R{sub m} for well-channeled particles were compared with values calculated by appropriate theoretical models. For well-channeled particles the reduced electronic stopping power in the center of the channel was calculated assuming an exponential dependence of the impact parameter. It turned out, that all measured values could be reproduced by this theoretical model. (author).

  4. Channeling implants of B ions into silicon surfaces

    The profiles of boron ions impinging along the axis of silicon single crystal at energies in the 80-700 keV range were measured by SIMS. By a simple subtraction procedure the distributions for aligned incidence of the beam were decomposed into a random and into a channeled profile. The corresponding mean ranges, Rr, for random and Rc for channeled particles, as well as the ''maximum'' range Rm for well-channeled particles were compared with values calculated by appropriate theoretical models. For well-channeled particles the reduced electronic stopping power in the center of the channel was calculated assuming an exponential dependence of the impact parameter. It turned out, that all measured values could be reproduced by this theoretical model. (author)

  5. Lipid ion channels and the role of proteins

    Mosgaard, Lars D

    2013-01-01

    Synthetic lipid membranes in the absence of proteins can display quantized conduction events for ions that are virtually indistinguishable from those of protein channel. By indistinguishable we mean that one cannot decide based on the current trace alone whether conductance events originate from a membrane, which does or does not contain channel proteins. Additional evidence is required to distinguish between the two cases, and it is not always certain that such evidence can be provided. The phenomenological similarities are striking and span a wide range of phenomena: The typical conductances are of equal order and both lifetime distributions and current histograms are similar. One finds conduction bursts, flickering, and multistep-conductance. Lipid channels can be gated by voltage, and can be blocked by drugs. They respond to changes in lateral membrane tension and temperature. Thus, they behave like voltage-gated, temperature-gated and mechano-sensitive protein channels, or like receptors. Lipid channels ...

  6. Ion Selectivity Mechanism in a Bacterial Pentameric Ligand-Gated Ion Channel

    The proton-gated ion channel from Gloeobacter violaceus (GLIC) is a prokaryotic homolog of the eukaryotic nicotinic acetylcholine receptor that responds to the binding of neurotransmitter acetylcholine and mediates fast signal transmission. Recent emergence of a high-resolution crystal structure of GLIC captured in a potentially open state allowed detailed, atomic-level insight into ion conduction and selectivity mechanisms in these channels. Herein, we have examined the barriers to ion conduction and origins of ion selectivity in the GLIC channel by the construction of potential-of-mean-force profiles for sodium and chloride ions inside the transmembrane region. Our calculations reveal that the GLIC channel is open for a sodium ion to transport, but presents a 11 kcal/mol free energy barrier for a chloride ion. Our collective findings identify three distinct contributions to the observed preference for the permeant ions. First, there is a substantial contribution due to a ring of negatively charged glutamate residues (E-2 ) at the narrow intracellular end of the channel. The negative electrostatics of this region and the ability of the glutamate side chains to directly bind cations would strongly favor the passage of sodium ions while hindering translocation of chloride ions. Second, our results imply a significant hydrophobic contribution to selectivity linked to differences in the desolvation penalty for the sodium versus chloride ions in the central hydrophobic region of the pore. This hydrophobic contribution is evidenced by the large free energy barriers experienced by Cl in the middle of the pore for both GLIC and the E-2 A mutant. Finally, there is a distinct contribution arising from the overall negative electrostatics of the channel.

  7. Imaging the PCP site of the NMDA ion channel

    Waterhouse, Rikki N. E-mail: rnw7@columbia.edu

    2003-11-01

    The N-methyl-D-aspartate (NMDA) ion channel plays a role in neuroprotection, neurodegeneration, long-term potentiation, memory, and cognition. It is implicated in the pathophysiology of several neurological and neuropsychiatric disorders including Parkinson's Disease, Huntington's Chorea, schizophrenia, alcoholism and stroke. The development of effective radiotracers for the study of NMDA receptors is critical for our understanding of their function, and their modulation by endogenousr substances or therapeutic drugs. Since the NMDA/PCP receptor lies within the channel, it is a unique target and is theoretically accessible only when the channel is in the active and 'open' state, but not when it is in the inactive or 'closed' state. The physical location of the NMDA/PCP receptor not only makes it an important imaging target but also complicates the development of suitable PET and SPECT radiotracers for this site. An intimate understanding of the biochemical, pharmacological, physiological and behavioral processes associated with the NMDA ion channel is essential to develop improved imaging agents. This review outlines progress made towards the development of radiolabeled agents for PCP sites of the NMDA ion channel. In addition, the animal and pharmacological models used for in vitro and in vivo assessment of NMDA receptor targeted agents are discussed.

  8. Imaging the PCP site of the NMDA ion channel

    The N-methyl-D-aspartate (NMDA) ion channel plays a role in neuroprotection, neurodegeneration, long-term potentiation, memory, and cognition. It is implicated in the pathophysiology of several neurological and neuropsychiatric disorders including Parkinson's Disease, Huntington's Chorea, schizophrenia, alcoholism and stroke. The development of effective radiotracers for the study of NMDA receptors is critical for our understanding of their function, and their modulation by endogenousr substances or therapeutic drugs. Since the NMDA/PCP receptor lies within the channel, it is a unique target and is theoretically accessible only when the channel is in the active and 'open' state, but not when it is in the inactive or 'closed' state. The physical location of the NMDA/PCP receptor not only makes it an important imaging target but also complicates the development of suitable PET and SPECT radiotracers for this site. An intimate understanding of the biochemical, pharmacological, physiological and behavioral processes associated with the NMDA ion channel is essential to develop improved imaging agents. This review outlines progress made towards the development of radiolabeled agents for PCP sites of the NMDA ion channel. In addition, the animal and pharmacological models used for in vitro and in vivo assessment of NMDA receptor targeted agents are discussed

  9. Ion channel voltage sensors: structure, function, and pathophysiology.

    Catterall, William A

    2010-09-23

    Voltage-gated ion channels generate electrical signals in species from bacteria to man. Their voltage-sensing modules are responsible for initiation of action potentials and graded membrane potential changes in response to synaptic input and other physiological stimuli. Extensive structure-function studies, structure determination, and molecular modeling are now converging on a sliding-helix mechanism for electromechanical coupling in which outward movement of gating charges in the S4 transmembrane segments catalyzed by sequential formation of ion pairs pulls the S4-S5 linker, bends the S6 segment, and opens the pore. Impairment of voltage-sensor function by mutations in Na+ channels contributes to several ion channelopathies, and gating pore current conducted by mutant voltage sensors in Na(V)1.4 channels is the primary pathophysiological mechanism in hypokalemic periodic paralysis. The emerging structural model for voltage sensor function opens the way to development of a new generation of ion-channel drugs that act on voltage sensors rather than blocking the pore. PMID:20869590

  10. Monitoring Ion Channel Function In Real Time Through Quantum Decoherence

    Hall, L T; Cole, J H; Städler, B; Caruso, F; Mulvaney, P; Wrachtrup, J; Hollenberg, L C L

    2009-01-01

    In drug discovery research there is a clear and urgent need for non-invasive detection of cell membrane ion channel operation with wide-field capability. Existing techniques are generally invasive, require specialized nano structures, or are only applicable to certain ion channel species. We show that quantum nanotechnology has enormous potential to provide a novel solution to this problem. The nitrogen-vacancy (NV) centre in nano-diamond is currently of great interest as a novel single atom quantum probe for nanoscale processes. However, until now, beyond the use of diamond nanocrystals as fluorescence markers, nothing was known about the quantum behaviour of a NV probe in the complex room temperature extra-cellular environment. For the first time we explore in detail the quantum dynamics of a NV probe in proximity to the ion channel, lipid bilayer and surrounding aqueous environment. Our theoretical results indicate that real-time detection of ion channel operation at millisecond resolution is possible by d...

  11. Role of Ion Channels in the Sperm Acrosome Reaction.

    Beltrán, Carmen; Treviño, Claudia L; Mata-Martínez, Esperanza; Chávez, Julio C; Sánchez-Cárdenas, Claudia; Baker, Mark; Darszon, Alberto

    2016-01-01

    The acrosome reaction (AR) is a unique exocytotic process where the acrosome, a single membrane-delimited specialized organelle, overlying the nucleus in the sperm head of many species, fuses with the overlying plasma membrane. This reaction, triggered by physiological inducers from the female gamete, its vicinity, or other stimuli, discharges the acrosomal content modifying the plasma membrane, incorporating the inner acrosomal membrane, and exposing it to the extracellular medium. The AR is essential for sperm-egg coat penetration, fusion with the eggs' plasma membrane, and fertilization. As in most exocytotic processes Ca(2+) is crucial for the AR, as well as intracellular pH and membrane potential changes. Thus, among the required processes needed for this reaction, ion permeability changes involving channels are pivotal. In spite of the key role ion channels play in the AR, their identity and regulation is not fully understood. Though molecular and pharmacological evidence indicates that various ionic channels participate during the AR, such as store-operated Ca(2+) channels and voltage-dependent Ca(2+) channels, whole cell patch clamp recordings have failed to detect some of them until now. Since sperm display a very high resistance and a minute cytoplasmic volume, very few channels are needed to achieve large membrane potential and concentration changes. Functional detection of few channels in the morphologically complex and tiny sperm poses technical problems, especially when their conductance is very small, as in the case of SOCs. Single channel recordings and novel fluorescence microscopy strategies will help to define the participation of ionic channels in the intertwined signaling network that orchestrates the AR. PMID:27194349

  12. Crystal orientation mapping via ion channeling: An alternative to EBSD

    A new method, which we name ion CHanneling ORientation Determination (iCHORD), is proposed to obtain orientation maps on polycrystals via ion channeling. The iChord method exploits the dependence between grain orientation and ion beam induced secondary electron image contrast. At each position of the region of interest, intensity profiles are obtained from a series of images acquired with different orientations with respect to the ion beam. The profiles are then compared to a database of theoretical profiles of known orientation. The Euler triplet associated to the most similar theoretical profile gives the orientation at that position. The proof-of-concept is obtained on a titanium nitride sample. The potentialities of iCHORD as an alternative to EBSD are then discussed. - Highlights: • A new method is proposed to obtain orientation maps via ion channeling. • This method exploits the dependence between grain orientation and SE image contrast. • Intensity profiles are obtained from images acquired with different orientations. • The profiles are then compared to a database of theoretical profiles of known orientation. • The potentialities of this method as an alternative to EBSD are discussed

  13. Crystal orientation mapping via ion channeling: An alternative to EBSD

    Langlois, C.; Douillard, T.; Yuan, H. [University of Lyon – INSA de Lyon – CNRS, MATEIS, UMR 5510, Bât. Blaise Pascal, 20 Avenue Albert Einstein, 69621 Villeurbanne (France); Blanchard, N.P. [University of Lyon – CNRS, ILM, UMR 5306, Université Lyon I, Bât. A. Kastler, 10 rue A. Byron, 69622 Villeurbanne (France); Descamps-Mandine, A. [University of Lyon – CNRS, INL, UMR 5510, Bât. B. Pascal, INSA de Lyon/Université Lyon I, 69621 Villeurbanne (France); Van de Moortèle, B. [Ecole Normale Supérieure de Lyon – CNRS, LGL, 46 allée d’Italie, 69364 Lyon (France); Rigotti, C. [University of Lyon – INSA de Lyon – CNRS, LIRIS, UMR 5205, INRIA, Bât. Blaise Pascal, 20 Avenue Albert Einstein, 69621 Villeurbanne (France); Epicier, T. [University of Lyon – INSA de Lyon – CNRS, MATEIS, UMR 5510, Bât. Blaise Pascal, 20 Avenue Albert Einstein, 69621 Villeurbanne (France)

    2015-10-15

    A new method, which we name ion CHanneling ORientation Determination (iCHORD), is proposed to obtain orientation maps on polycrystals via ion channeling. The iChord method exploits the dependence between grain orientation and ion beam induced secondary electron image contrast. At each position of the region of interest, intensity profiles are obtained from a series of images acquired with different orientations with respect to the ion beam. The profiles are then compared to a database of theoretical profiles of known orientation. The Euler triplet associated to the most similar theoretical profile gives the orientation at that position. The proof-of-concept is obtained on a titanium nitride sample. The potentialities of iCHORD as an alternative to EBSD are then discussed. - Highlights: • A new method is proposed to obtain orientation maps via ion channeling. • This method exploits the dependence between grain orientation and SE image contrast. • Intensity profiles are obtained from images acquired with different orientations. • The profiles are then compared to a database of theoretical profiles of known orientation. • The potentialities of this method as an alternative to EBSD are discussed.

  14. Quantum coherence in ion channels: Resonances, Transport and Verification

    Vaziri, A

    2010-01-01

    Recently it was demonstrated that long-lived quantum coherence exists during excitation energy transport in photosynthesis. It is a valid question up to which length, time and mass scales quantum coherence may extend, how to one may detect this coherence and what if any role it plays for the dynamics of the system. Here we suggest that the selectivity filter of ion channels may exhibit quantum coherence which might be relevant for the process of ion selectivity and conduction. We show that quantum resonances could provide an alternative approch to ultrafast 2D spectroscopy to probe these quantum coherences. We demonstrate that the emergence of resonances in the conduction of ion channels that are modulated periodicallly by time dependent external electric fields can serve as signitures of quantum coherence in such a system. Assessments of experimental feasibility and specific paths towards the experimental realization of such experiments are presented. We show that this may be probed by direct 2-D spectroscop...

  15. 50 years of ion channeling in materials science

    Vantomme, André

    2016-03-01

    In the early days of ion beam analysis, i.e. the early 60s, channeling was discovered and brought to maturity via a combined effort in experimental, computational and theoretical research. It was soon realized that the probability for nuclear interaction (such as nuclear scattering, nuclear reactions, ionization followed by X-ray emission…) would significantly decrease when steering the ion beam along a crystallographic direction of a single crystal. Hence, this effect would be optimally suited to investigate a wide range of materials properties related to their crystal structure, such as defects, elastic strain, the lattice site of impurities, as well as phonon-related properties. In this paper, I will briefly review some of the pioneering work, which led to the discovery and theoretical understanding of ion channeling. Subsequently, a number of applications will be discussed where the strength of the ion beam analysis technique allows deducing information which is often hardly (or not) attainable by other techniques. Throughout the paper, I will reflect on the future of channeling in materials research, and pay special attention to potential pitfalls, challenges and opportunities.

  16. Lipid bilayer array for simultaneous recording of ion channel activities

    Hirano-Iwata, Ayumi; Nasu, Tomohiro; Oshima, Azusa; Kimura, Yasuo; Niwano, Michio

    2012-07-01

    This paper describes an array of stable and reduced-solvent bilayer lipid membranes (BLMs) formed in microfabricated silicon chips. BLMs were first vertically formed simultaneously and then turned 90° in order to realize a horizontal BLM array. Since the present BLMs are mechanically stable and robust, the BLMs survive this relatively tough process. Typically, a ˜60% yield in simultaneous BLM formation over 9 sites was obtained. Parallel recordings of gramicidin channel activities from different BLMs were demonstrated. The present system has great potential as a platform of BLM-based high throughput drug screening for ion channel proteins.

  17. Binding of Capsaicin to the TRPV1 Ion Channel.

    Darré, Leonardo; Domene, Carmen

    2015-12-01

    Transient receptor potential (TRP) ion channels constitute a notable family of cation channels involved in the ability of an organisms to detect noxious mechanical, thermal, and chemical stimuli that give rise to the perception of pain, taste, and changes in temperature. One of the most experimentally studied agonist of TRP channels is capsaicin, which is responsible for the burning sensation produced when chili pepper is in contact with organic tissues. Thus, understanding how this molecule interacts and regulates TRP channels is essential to high impact pharmacological applications, particularly those related to pain treatment. The recent publication of a three-dimensional structure of the vanilloid receptor 1 (TRPV1) in the absence and presence of capsaicin from single particle electron cryomicroscopy experiments provides the opportunity to explore these questions at the atomic level. In the present work, molecular docking and unbiased and biased molecular dynamics simulations were employed to generate a structural model of the capsaicin-channel complex. In addition, the standard free energy of binding was estimated using alchemical transformations coupled with conformational, translational, and orientational restraints on the ligand. Key binding modes consistent with previous experimental data are identified, and subtle but essential dynamical features of the binding site are characterized. These observations shed some light into how TRPV1 interacts with capsaicin, and may help to refine design parameters for new TRPV1 antagonists, and potentially guide further developments of TRP channel modulators. PMID:26502196

  18. Ion channels and beating heart: the players and the music

    Charles Antzelevitch

    2011-12-01

    Full Text Available Soft gentle music accompanies us throughout our lifetime; it is the music of our heart beating. Although at times it is questionable as to who serves as conductor of the orchestra, there is little doubt that our ion channels are the main players. Whenever one of them plays too loudly, too softly or simply off key, disharmony results, sometimes leading to total disruption of the rate and rhythm. Ion channels can disrupt the music of our heart by different mechanisms. Sometimes their function is correct, but their expression is altered by underlying cardiac diseases (i.e. heart failure; sometimes the defect is in their structure, because of an underlying genetic defect, and in this case a channelopathy is present.

  19. Automatable lipid bilayer formation for ion channel studies

    Poulos, Jason L.; Bang, Hyunwoo; Jeon, Tae-Joon; Schmidt, Jacob J.

    2008-08-01

    Transmembrane proteins and ion channels are important drug targets and have been explored as single molecule sensors. For these proteins to function normally they must be integrated within lipid bilayers; however, the labor and skill required to create artificial lipid bilayers have the limited the possible applications utilizing these proteins. In order to reduce the complexity and cost of lipid bilayer formation and measurement, we have modified a previously published lipid bilayer formation technique using mechanically contacted monolayers so that the process is automatable, requiring minimal operator input. Measurement electronics are integrated with the fluid handling system, greatly reducing the time and operator feedback characteristically required of traditional bilayer experiments. To demonstrate the biological functionality of the resultant bilayers and the system's capabilities as a membrane platform, the ion channel gramicidin A was incorporated and measured with this system.

  20. Universal scalings for laser acceleration of electrons in ion channels

    Khudik, Vladimir; Arefiev, Alexey; Zhang, Xi; Shvets, Gennady

    2016-01-01

    Direct laser acceleration of electrons in ion channels is investigated in a general case when the laser phase velocity is greater than (or equal to) the speed of light. Using the similarity of the equations of motion for ultra-relativistic electrons, we develop a universal scaling theory that gives the maximum possible energy that can be attained by an electron for given laser and plasma parameters. The theory predicts appearance of forbidden zones in the phase space of the particle, which ma...

  1. Coupling Effect of Ion Channel Clusters on Calcium Signalling

    Based on a modified intracellular Ca2+ model involving diffusive coupling of two calcium ion channel clusters, the effects of coupling on calcium signalling are numerically investigated. The simulation results indicate that the diffusive coupling of clusters together with internal noise determine the calcium dynamics of single cluster, and for either homogeneous or heterogeneous coupled clusters, the synchronization of clusters, which is important to calcium signalling, is enhanced by the coupling effect

  2. Ion Channel Voltage Sensors: Structure, Function, and Pathophysiology

    Catterall, William A.

    2010-01-01

    Voltage-gated ion channels generate electrical signals in species from bacteria to man. Their voltage-sensing modules are responsible for initiation of action potentials and graded membrane potential changes in response to synaptic input and other physiological stimuli. Extensive structure-function studies, structure determination, and molecular modeling are now converging on a sliding-helix mechanism for electromechanical coupling in which outward movement of gating charges in the S4 transme...

  3. Testing the Markov condition in ion channel recordings

    Timmer, J

    1997-01-01

    A statistical test is presented to decide whether data are adequately described by probabilistic functions of finite state Markov chains (''hidden Markov models'') as applied in the analysis of ion channel data. Particularly, the test can be used to decide whether a system obeys the Markov condition. Simulation studies are performed in order to investigate the sensitivity of the proposed test against violations of the model assumptions. The test can be applied analogously to Markov models.

  4. Coupling Effect of Ion Channel Clusters on Calcium Signalling

    TANG Jun; JIA Ya; YI Ming; MA Jun; YU Guang

    2008-01-01

    @@ Based on a modified intracellular Ca2+ model involving diffusive coupling of two calcium ion channel clusters,the effects of coupling on calcium signalling are numerically investigated.The simulation results indicate that the diffusive coupling of clusters together with internal noise determine the calcium dynamics of single cluster,and for either homogeneous or heterogeneous coupled clusters,the synchronization of clusters,which is important to calcium signalling,is enhanced by the coupling effect.

  5. Cells exposed to a huntingtin fragment containing an expanded polyglutamine tract show no sign of ion channel formation: results arguing against the ion channel hypothesis

    Nørremølle, Anne; Grunnet, Morten; Hasholt, Lis; Sørensen, Sven Asger

    2003-01-01

    Ion channels formed by expanded polyglutamine tracts have been proposed to play an important role in the pathological processes leading to neurodegeneration in Huntington's disease and other CAG repeat diseases. We tested the capacity of a huntingtin fragment containing an expanded polyglutamine ...... currents recorded in any of the two expression systems, indicating no changes in ion channel activity. The results therefore argue against the proposed hypothesis of expanded polyglutamines forming ion channels....

  6. Modeling negative ion defect migration through the gramicidin A channel.

    Nemukhin, Alexander V; Kaliman, Ilya A; Moskovsky, Alexander A

    2009-08-01

    The results of potential of mean force (PMF) calculations for the distinct stages of proton conduction through the gramicidin A channel, including proton migration, reorientation of the water file and negative ion defect migration, are presented. The negative ion defect migration mechanism was hypothesized in experimental studies but was not considered previously in molecular dynamics simulations. The model system consisted of the peptide chains constructed on the base of the structure PDBID:1JNO, the inner file of nine water molecules and external clusters of water molecules placed at both ends of the channel. Potential energy functions were computed with the CHARMM/PM6/TIP3P parameters. The results obtained for proton migration and water file reorientation are basically consistent with those reported previously by Pómès and Roux (Biophys J 82:2304, 2002) within the similar approach. For the newly considered mechanism of negative ion defect migration from the channel center to the end of the water file we obtain the energy 3.8 kcal mol(-1) which is not considerably different from the activation energy of water reorientation, 5.4 kcal mol(-1). Therefore this mechanism may principally compete for the rate-limiting step in proton conduction in gramicidin. PMID:19198898

  7. Side-effects of protein kinase inhibitors on ion channels

    Youn Kyoung Son; Hongzoo Park; Amy L Firth; Won Sun Park

    2013-12-01

    Protein kinases are one of the largest gene families and have regulatory roles in all aspects of eukaryotic cell function. Modulation of protein kinase activity is a desirable therapeutic approach for a number of human diseases associated with aberrant kinase activity, including cancers, arthritis and cardiovascular disorders. Several strategies have been used to develop specific and selective protein kinase modulators, primarily via inhibition of phosphorylation and down-regulation of kinase gene expression. These strategies are effective at regulating intracellular signalling pathways, but are unfortunately associated with several undesirable effects, particularly those that modulate ion channel function. In fact, the side-effects have precluded these inhibitors from being both useful experimental tools and therapeutically viable. This review focuses on the ion channel side-effects of several protein kinase inhibitors and specifically on those modulating K+, Na+ and Ca2+ ion channels. It is hoped that the information provided with a detailed summary in this review will assist the future development of novel specific and selective compounds targeting protein kinases both for experimental tools and for therapeutic approaches.

  8. Peptidomimetic Star Polymers for Targeting Biological Ion Channels.

    Chen, Rong; Lu, Derong; Xie, Zili; Feng, Jing; Jia, Zhongfan; Ho, Junming; Coote, Michelle L; Wu, Yingliang; Monteiro, Michael J; Chung, Shin-Ho

    2016-01-01

    Four end-functionalized star polymers that could attenuate the flow of ionic currents across biological ion channels were first de novo designed computationally, then synthesized and tested experimentally on mammalian K+ channels. The 4-arm ethylene glycol conjugate star polymers with lysine or a tripeptide attached to the end of each arm were specifically designed to mimic the action of scorpion toxins on K+ channels. Molecular dynamics simulations showed that the lysine side chain of the polymers physically occludes the pore of Kv1.3, a target for immuno-suppression therapy. Two of the compounds tested were potent inhibitors of Kv1.3. The dissociation constants of these two compounds were computed to be 0.1 μM and 0.7 μM, respectively, within 3-fold to the values derived from subsequent experiments. These results demonstrate the power of computational methods in molecular design and the potential of star polymers as a new infinitely modifiable platform for ion channel drug discovery. PMID:27007701

  9. Peptidomimetic Star Polymers for Targeting Biological Ion Channels

    Chen, Rong; Lu, Derong; Xie, Zili; Feng, Jing; Jia, Zhongfan; Ho, Junming; Coote, Michelle L.; Wu, Yingliang; Monteiro, Michael J.; Chung, Shin-Ho

    2016-01-01

    Four end-functionalized star polymers that could attenuate the flow of ionic currents across biological ion channels were first de novo designed computationally, then synthesized and tested experimentally on mammalian K+ channels. The 4-arm ethylene glycol conjugate star polymers with lysine or a tripeptide attached to the end of each arm were specifically designed to mimic the action of scorpion toxins on K+ channels. Molecular dynamics simulations showed that the lysine side chain of the polymers physically occludes the pore of Kv1.3, a target for immuno-suppression therapy. Two of the compounds tested were potent inhibitors of Kv1.3. The dissociation constants of these two compounds were computed to be 0.1 μM and 0.7 μM, respectively, within 3-fold to the values derived from subsequent experiments. These results demonstrate the power of computational methods in molecular design and the potential of star polymers as a new infinitely modifiable platform for ion channel drug discovery. PMID:27007701

  10. Ion permeation of AQP6 water channel protein. Single channel recordings after Hg2+ activation.

    Hazama, Akihiro; Kozono, David; Guggino, William B; Agre, Peter; Yasui, Masato

    2002-08-01

    Aquaporin-6 (AQP6) has recently been identified as an intracellular vesicle water channel with anion permeability that is activated by low pH or HgCl2. Here we present direct evidence of AQP6 channel gating using patch clamp techniques. Cell-attached patch recordings of AQP6 expressed in Xenopus laevis oocytes indicated that AQP6 is a gated channel with intermediate conductance (49 picosiemens in 100 mm NaCl) induced by 10 microm HgCl2. Current-voltage relationships were linear, and open probability was fairly constant at any given voltage, indicating that Hg2+-induced AQP6 conductance is voltage-independent. The excised outside-out patch recording revealed rapid activation of AQP6 channels immediately after application of 10 microm HgCl2. Reduction of both Na+ and Cl- concentrations from 100 to 30 mm did not shift the reversal potential of the Hg2+-induced AQP6 current, suggesting that Na+ is as permeable as Cl-. The Na+ permeability of Hg2+-induced AQP6 current was further demonstrated by 22Na+ influx measurements. Site-directed mutagenesis identified Cys-155 and Cys-190 residues as the sites of Hg2+ activation both for water permeability and ion conductance. The Hill coefficient from the concentration-response curve for Hg2+-induced conductance was 1.1 +/- 0.3. These data provide the first evidence of AQP6 channel gating at a single-channel level and suggest that each monomer contains the pore region for ions based on the number of Hg2+-binding sites and the kinetics of Hg2+-activation of the channel. PMID:12034750

  11. Poisson-Nernst-Planck-Fermi Theory for Ion Channels

    Liu, Jinn-Liang

    2015-01-01

    A Poisson-Nernst-Planck-Fermi (PNPF) theory is developed for studying ionic transport through biological ion channels. Our goal is to deal with the finite size of particle using a Fermi like distribution without calculating the forces between the particles, because they are both expensive and tricky to compute. We include the steric effect of ions and water molecules with nonuniform sizes and interstitial voids, the correlation effect of crowded ions with different valences, and the screening effect of water molecules in an inhomogeneous aqueous electrolyte. Including the finite volume of water and the voids between particles is an important new part of the theory presented here. Fermi like distributions of all particle species are derived from the volume exclusion of classical particles. The classical Gibbs entropy is extended to a new entropy form --- called Gibbs-Fermi entropy --- that describes mixing configurations of all finite size particles and voids in a thermodynamic system where microstates do not ...

  12. Quantum Decoherence Timescales for Ionic Superposition States in Ion Channels

    Salari, V; Fazileh, F; Shahbazi, F

    2014-01-01

    There are many controversial and challenging discussions about quantum effects in microscopic structures in neurons of the human brain. The challenge is mainly because of quick decoherence of quantum states due to hot, wet and noisy environment of the brain which forbids long life coherence for brain processing. Despite these critical discussions, there are only a few number of published papers about numerical aspects of decoherence in neurons. Perhaps the most important issue is offered by Max Tegmark who has calculated decoherence times for the systems of "ions" and "microtubules" in neurons of the brain. In fact, Tegmark did not consider ion channels which are responsible for ions displacement through the membrane and are the building blocks of electrical membrane signals in the nervous system. Here, we would like to re-investigate decoherence times for ionic superposition states by using the data obtained via molecular dynamics simulations. Our main approach is according to what Tegmark has used before. I...

  13. Zinc as Allosteric Ion Channel Modulator: Ionotropic Receptors as Metalloproteins.

    Peralta, Francisco Andrés; Huidobro-Toro, Juan Pablo

    2016-01-01

    Zinc is an essential metal to life. This transition metal is a structural component of many proteins and is actively involved in the catalytic activity of cell enzymes. In either case, these zinc-containing proteins are metalloproteins. However, the amino acid residues that serve as ligands for metal coordination are not necessarily the same in structural proteins compared to enzymes. While crystals of structural proteins that bind zinc reveal a higher preference for cysteine sulfhydryls rather than histidine imidazole rings, catalytic enzymes reveal the opposite, i.e., a greater preference for the histidines over cysteines for catalysis, plus the influence of carboxylic acids. Based on this paradigm, we reviewed the putative ligands of zinc in ionotropic receptors, where zinc has been described as an allosteric modulator of channel receptors. Although these receptors do not strictly qualify as metalloproteins since they do not normally bind zinc in structural domains, they do transitorily bind zinc at allosteric sites, modifying transiently the receptor channel's ion permeability. The present contribution summarizes current information showing that zinc allosteric modulation of receptor channels occurs by the preferential metal coordination to imidazole rings as well as to the sulfhydryl groups of cysteine in addition to the carboxyl group of acid residues, as with enzymes and catalysis. It is remarkable that most channels, either voltage-sensitive or transmitter-gated receptor channels, are susceptible to zinc modulation either as positive or negative regulators. PMID:27384555

  14. Computer Simulation Studies of Ion Channels at High Temperatures

    Song, Hyun Deok

    The gramicidin channel is the smallest known biological ion channel, and it exhibits cation selectivity. Recently, Dr. John Cuppoletti's group at the University of Cincinnati showed that the gramicidin channel can function at high temperatures (360 ˜ 380K) with significant currents. This finding may have significant implications for fuel cell technology. In this thesis, we have examined the gramicidin channel at 300K, 330K, and 360K by computer simulation. We have investigated how the temperature affects the current and differences in magnitude of free energy between the two gramicidin forms, the helical dimer (HD) and the double helix (DH). A slight decrease of the free energy barrier inside the gramicidin channel and increased diffusion at high temperatures result in an increase of current. An applied external field of 0.2V/nm along the membrane normal results in directly observable ion transport across the channels at high temperatures for both HD and DH forms. We found that higher temperatures also affect the probability distribution of hydrogen bonds, the bending angle, the distance between dimers, and the size of the pore radius for the helical dimer structure. These findings may be related to the gating of the gramicidin channel. Methanococcus jannaschii (MJ) is a methane-producing thermophile, which was discovered at a depth of 2600m in a Pacific Ocean vent in 1983. It has the ability to thrive at high temperatures and high pressures, which are unfavorable for most life forms. There have been some experiments to study its stability under extreme conditions, but still the origin of the stability of MJ is not exactly known. MJ0305 is the chloride channel protein from the thermophile MJ. After generating a structure of MJ0305 by homology modeling based on the Ecoli ClC templates, we examined the thermal stability, and the network stability from the change of network entropy calculated from the adjacency matrices of the protein. High temperatures increase the

  15. Ion movement through gramicidin A channels. Interfacial polarization effects on single-channel current measurements.

    Andersen, O S

    1983-01-01

    Gramicidin A single-channel current-voltage characteristics were studied at low permeant ion concentrations and very high applied potentials. The purpose of these experiments was to elucidate the basis for the small, but definite, voltage dependence observed under these circumstances. It was found that this residual voltage dependence is a reflection of interfacial polarization effects, similar to those proposed by Walz et al. (Biophys. J. 9:1150-1159). It will be concluded that there exists ...

  16. Modeling magnetosensitive ion channels in viscoelastic environment of living cells

    Goychuk, Igor

    2015-01-01

    We propose and study a model of hypothetical magnetosensitive ionic channels which are long thought to be a possible candidate to explain the influence of weak magnetic fields on living organisms ranging from magnetotactic bacteria to fishes, birds, rats, bats and other mammals including humans. The core of the model is provided by a short chain of magnetosomes serving as a sensor which is coupled by elastic linkers to the gating elements of ion channels forming a small cluster in the cell membrane. The magnetic sensor is fixed by one end on cytoskeleton elements attached to the membrane and is exposed to viscoelastic cytosol. Its free end can reorient stochastically and subdiffusively in viscoelastic cytosol responding to external magnetic field changes and open the gates of coupled ion channels. The sensor dynamics is generally bistable due to bistability of the gates which can be in two states with probabilities which depend on the sensor orientation. For realistic parameters, it is shown that this model c...

  17. Calcium-permeable ion channels involved in glutamate receptor-independent ischemic brain injury

    Ming-hua LI; Koichi INOUE; Hong-fang SI; Zhi-gang XIONG

    2011-01-01

    Brain ischemia is a leading cause of death and long-term disabilities worldwide. Unfortunately, current treatment is limited to thrombolysis, which has limited success and a potential side effect of intracerebral hemorrhage. Searching for new cell injury mechanisms and therapeutic interventions has become a major challenge in the field. It has been recognized for many years that intracellular Ca2+overload in neurons is essential for neuronal injury associated with brain ischemia. However, the exact pathway(s) underlying the toxic Ca2+ loading remained elusive. This review discusses the role of two Ca2+-permeable cation channels, TRPM7 and acid-sensing channels, in glutamate-independent Ca2+ toxicity associated with brain ischemia.

  18. Voltage-Gated Ion Channels in Cancer Cell Proliferation

    Rao, Vidhya R.; Perez-Neut, Mathew [Department of Molecular Pharmacology and Therapeutics, Loyola University Chicago 2160 S. 1st Ave, Maywood, IL 60153 (United States); Kaja, Simon [Department of Ophthalmology and Vision Research Center, School of Medicine, University of Missouri-Kansas City, 2411 Holmes St., Kansas City, MO 64108 (United States); Gentile, Saverio, E-mail: sagentile@luc.edu [Department of Molecular Pharmacology and Therapeutics, Loyola University Chicago 2160 S. 1st Ave, Maywood, IL 60153 (United States)

    2015-05-22

    Changes of the electrical charges across the surface cell membrane are absolutely necessary to maintain cellular homeostasis in physiological as well as in pathological conditions. The opening of ion channels alter the charge distribution across the surface membrane as they allow the diffusion of ions such as K{sup +}, Ca{sup ++}, Cl{sup −}, Na{sup +}. Traditionally, voltage-gated ion channels (VGIC) are known to play fundamental roles in controlling rapid bioelectrical signaling including action potential and/or contraction. However, several investigations have revealed that these classes of proteins can also contribute significantly to cell mitotic biochemical signaling, cell cycle progression, as well as cell volume regulation. All these functions are critically important for cancer cell proliferation. Interestingly, a variety of distinct VGICs are expressed in different cancer cell types, including metastasis but not in the tissues from which these tumors were generated. Given the increasing evidence suggesting that VGIC play a major role in cancer cell biology, in this review we discuss the role of distinct VGIC in cancer cell proliferation and possible therapeutic potential of VIGC pharmacological manipulation.

  19. Materials analysis by ion backscattering and channeling. Materials modification by ion irradiation and implementation

    A description will be given of the basic processes occuring during ion implantation and ion beam analyses. The usefulness of the backscattering and channeling technique is demonstrated by a discussion of the applications to thin film analysis, studies of diffusion and reactions in thin films, lattice location investigations, disorder analysis and surface studies. Ion implantation is a valuable research tool in metallurgy. The process operates very far from equilibrium conditions and thus will influence near surface properties in a unique way. The observed modifications are related to special microscopic structures which will be considered in detail. (orig.)

  20. Tarantula toxins use common surfaces for interacting with Kv and ASIC ion channels

    Zamanian, M; Bae, C.; Gupta, K.; Milescu, M; Krepkiy, D; Tilley, D.; Sack, J.; Yarov-Yarovoy, V; Kim, JII; Swartz, K

    2015-01-01

    eLife digest Venomous animals like tarantulas or scorpions inject their prey with toxins to disable them. Some of these toxins work by altering the activity of proteins called ion channels, which are found within membranes in cells. These channels can allow potassium ions and/or other ions to pass through the membrane and have many important roles. For example, ion channels are involved in heart muscle contraction and allow information to travel between brain cells. Researchers have used some...

  1. Zinc as Allosteric Ion Channel Modulator: Ionotropic Receptors as Metalloproteins

    Peralta, Francisco Andrés; Huidobro-Toro, Juan Pablo

    2016-01-01

    Zinc is an essential metal to life. This transition metal is a structural component of many proteins and is actively involved in the catalytic activity of cell enzymes. In either case, these zinc-containing proteins are metalloproteins. However, the amino acid residues that serve as ligands for metal coordination are not necessarily the same in structural proteins compared to enzymes. While crystals of structural proteins that bind zinc reveal a higher preference for cysteine sulfhydryls rather than histidine imidazole rings, catalytic enzymes reveal the opposite, i.e., a greater preference for the histidines over cysteines for catalysis, plus the influence of carboxylic acids. Based on this paradigm, we reviewed the putative ligands of zinc in ionotropic receptors, where zinc has been described as an allosteric modulator of channel receptors. Although these receptors do not strictly qualify as metalloproteins since they do not normally bind zinc in structural domains, they do transitorily bind zinc at allosteric sites, modifying transiently the receptor channel’s ion permeability. The present contribution summarizes current information showing that zinc allosteric modulation of receptor channels occurs by the preferential metal coordination to imidazole rings as well as to the sulfhydryl groups of cysteine in addition to the carboxyl group of acid residues, as with enzymes and catalysis. It is remarkable that most channels, either voltage-sensitive or transmitter-gated receptor channels, are susceptible to zinc modulation either as positive or negative regulators. PMID:27384555

  2. A parallel finite element simulator for ion transport through three-dimensional ion channel systems.

    Tu, Bin; Chen, Minxin; Xie, Yan; Zhang, Linbo; Eisenberg, Bob; Lu, Benzhuo

    2013-09-15

    A parallel finite element simulator, ichannel, is developed for ion transport through three-dimensional ion channel systems that consist of protein and membrane. The coordinates of heavy atoms of the protein are taken from the Protein Data Bank and the membrane is represented as a slab. The simulator contains two components: a parallel adaptive finite element solver for a set of Poisson-Nernst-Planck (PNP) equations that describe the electrodiffusion process of ion transport, and a mesh generation tool chain for ion channel systems, which is an essential component for the finite element computations. The finite element method has advantages in modeling irregular geometries and complex boundary conditions. We have built a tool chain to get the surface and volume mesh for ion channel systems, which consists of a set of mesh generation tools. The adaptive finite element solver in our simulator is implemented using the parallel adaptive finite element package Parallel Hierarchical Grid (PHG) developed by one of the authors, which provides the capability of doing large scale parallel computations with high parallel efficiency and the flexibility of choosing high order elements to achieve high order accuracy. The simulator is applied to a real transmembrane protein, the gramicidin A (gA) channel protein, to calculate the electrostatic potential, ion concentrations and I - V curve, with which both primitive and transformed PNP equations are studied and their numerical performances are compared. To further validate the method, we also apply the simulator to two other ion channel systems, the voltage dependent anion channel (VDAC) and α-Hemolysin (α-HL). The simulation results agree well with Brownian dynamics (BD) simulation results and experimental results. Moreover, because ionic finite size effects can be included in PNP model now, we also perform simulations using a size-modified PNP (SMPNP) model on VDAC and α-HL. It is shown that the size effects in SMPNP can

  3. Non-equilibrium dynamics contribute to ion selectivity in the KcsA channel.

    Van Ngo

    Full Text Available The ability of biological ion channels to conduct selected ions across cell membranes is critical for the survival of both animal and bacterial cells. Numerous investigations of ion selectivity have been conducted over more than 50 years, yet the mechanisms whereby the channels select certain ions and reject others are not well understood. Here we report a new application of Jarzynski's Equality to investigate the mechanism of ion selectivity using non-equilibrium molecular dynamics simulations of Na(+ and K(+ ions moving through the KcsA channel. The simulations show that the selectivity filter of KcsA adapts and responds to the presence of the ions with structural rearrangements that are different for Na(+ and K(+. These structural rearrangements facilitate entry of K(+ ions into the selectivity filter and permeation through the channel, and rejection of Na(+ ions. A mechanistic model of ion selectivity by this channel based on the results of the simulations relates the structural rearrangement of the selectivity filter to the differential dehydration of ions and multiple-ion occupancy and describes a mechanism to efficiently select and conduct K(+. Estimates of the K(+/Na(+ selectivity ratio and steady state ion conductance for KcsA from the simulations are in good quantitative agreement with experimental measurements. This model also accurately describes experimental observations of channel block by cytoplasmic Na(+ ions, the "punch through" relief of channel block by cytoplasmic positive voltages, and is consistent with the knock-on mechanism of ion permeation.

  4. Role of ions and ion channels in capacitation and acrosome reaction of spermatozoa

    SharadBPurohit; MaliniLaloraya; G.pradeepkumar

    1999-01-01

    Capacitation and acrosome reaction are important prerequisites of the fertilization process. Capacitation is a highlycomplex phenomenon occurring in the female genital tract, rendering the spermatozoa capable of binding and fusionwith the oocyte. During capacitation various biochemical and biophysical changes occur in the spermatozoa and thespermatozoal membranes. Ions and ion channels also play important roles in governing the process of capacitation bychanging the fluxes of different ions which in turn controls various characteristics of capacitated spermatozoa. Alongwith the mobilization of ions the generation of free radicals and efflux of cholesterol also plays an impo~.nt role in thecapacitation state of the spermatozoa. The generation of free radical and efflux of cholesterol change the mechano-dynamic properties of the membrane by oxidation of the polyunsaturated lipids and by generating the cholesterol freepatches. The process of capacitation renders the spermatozoa responsive to the inducers of the acrosome reaction. Theglycoprotein zona pellucida 3 (ZP3) of the egg coat zona pellucida is the potent physiological stimulator of the acro-some reaction; progesterone, a major component of the follicular fluid, is also an inducer of the acrosome reaction.The inducers of the acrosome reaction cause the activation of the various ion-channels leading to high influxes of calci-um, sodium and bicarbonate. The efflux of cholesterol during the process of capacitation alters the permeability of themembrane to the ions and generate areas which are prone to fusion and ve.siculation process during the acrosome reactioa. this review focuses mainly on effects of the ion and ion-channels, free radicals, and membrane fluidity changesduring the process of capacitation and acrosome reaction.

  5. Patch electrode glass composition affects ion channel currents.

    Furman, R E; Tanaka, J C

    1988-01-01

    The influence of patch electrode glass composition on macroscopic IV relations in inside-out patches of the cGMP-activated ion channel from rod photoreceptors was examined for a soda lime glass, a Kovar sealing glass, a borosilicate glass, and several soft lead glasses. In several glasses the shape or magnitude of the currents changed as the concentration of EGTA or EDTA was increased from 200 microM to 10 mM. The changes in IV response suggest that, at low concentrations of chelator, divalen...

  6. Synthetic Channel-forming Peptides and Ion Selectivity

    2006-01-01

    @@ Introduction Peptides made up of alternating L- and D- amino acids can form β-helices as in gramicidin A or cyclic peptides that aggregate to form tubes[1]. In both cases the structures are hollow with all the side chains projecting outwards. Kennedy et al. [2] postulated that peptides having the (LLLD)n configuration could form helices with every fourth side chain projecting inward.It is a fact that synthetic N-formyl-( LeuSerLeuGly)6-OH, when added to a lipid bilayer, dimerizes, to form ion channels having conductances greater than that of gramicidin.

  7. Semiconductor chips with ion channels, nerve cells and brain

    Fromherz, Peter

    2003-01-01

    The electrical interfacing of individual nerve cells and semiconductor microstructures as well as the assembly of neuronal networks and microelectronic circuits, is considered. At first the planar core-coat conductor of a neuron-silicon junction is studied as it determines the coupling of ion-conducting neurons and electron-conducting silicon. The width of the cleft between cell and chip, the resistance of cleft and voltage-gate ion channels in the junction are investigated. On that basis, a subsequent section describes the electronic interfacing of individual cultured neurons with silicon microstructures as well as the integration of microelectronics with small neuronal networks grown in culture. In a final part, the electronic interfacing of cultured brain slices is addressed. The goal of this approach is an integration of neuronal network dynamics and digital computation on a microscopic level for studies in brain research, biosensorics, information technology and medical prosthetics.

  8. Parameterization of ion channeling half-angles and minimum yields

    Doyle, Barney L.

    2016-03-01

    A MS Excel program has been written that calculates ion channeling half-angles and minimum yields in cubic bcc, fcc and diamond lattice crystals. All of the tables and graphs in the three Ion Beam Analysis Handbooks that previously had to be manually looked up and read from were programed into Excel in handy lookup tables, or parameterized, for the case of the graphs, using rather simple exponential functions with different power functions of the arguments. The program then offers an extremely convenient way to calculate axial and planar half-angles, minimum yields, effects on half-angles and minimum yields of amorphous overlayers. The program can calculate these half-angles and minimum yields for axes and [h k l] planes up to (5 5 5). The program is open source and available at

  9. Ionic fragmentation channels in electron collisions of small molecular ions

    Dissociative Recombination (DR) is one of the most important loss processes of molecular ions in the interstellar medium (IM). Ion storage rings allow to investigate these processes under realistic conditions. At the Heidelberg test storage ring TSR a new detector system was installed within the present work in order to study the DR sub-process of ion pair formation (IPF). The new detector expands the existing electron target setup by the possibility to measure strongly deflected negative ionic fragments. At the TSR such measurements can be performed with a uniquely high energy resolution by independently merging two electron beams with the ion beam. In this work IPF of HD+, H3+ and HF+ has been studied. In the case of HD+ the result of the high resolution experiment shows quantum interferences. Analysis of the quantum oscillations leads to a new understanding of the reaction dynamics. For H3+ it was for the first time possible to distinguish different IPF channels and to detect quantum interferences in the data. Finally the IPF of HF+ was investigated in an energy range, where in previous experiments no conclusive results could be obtained. (orig.)

  10. Quantum Model for the Selectivity Filter in K$^{+}$ Ion Channel

    Cifuentes, A A

    2013-01-01

    In this work, we present a quantum transport model for the selectivity filter in the KcsA potassium ion channel. This model is fully consistent with the fact that two conduction pathways are involved in the translocation of ions thorough the filter, and we show that the presence of a second path may actually bring advantages for the filter as a result of quantum interference. To highlight interferences and resonances in the model, we consider the selectivity filter to be driven by a controlled time-dependent external field which changes the free energy scenario and consequently the conduction of the ions. In particular, we demonstrate that the two-pathway conduction mechanism is more advantageous for the filter when dephasing in the transient configurations is lower than in the main configurations. As a matter of fact, K$^+$ ions in the main configurations are highly coordinated by oxygen atoms of the filter backbone and this increases noise. Moreover, we also show that, for a wide range of driving frequencie...

  11. Ionic fragmentation channels in electron collisions of small molecular ions

    Hoffmann, Jens

    2009-01-28

    Dissociative Recombination (DR) is one of the most important loss processes of molecular ions in the interstellar medium (IM). Ion storage rings allow to investigate these processes under realistic conditions. At the Heidelberg test storage ring TSR a new detector system was installed within the present work in order to study the DR sub-process of ion pair formation (IPF). The new detector expands the existing electron target setup by the possibility to measure strongly deflected negative ionic fragments. At the TSR such measurements can be performed with a uniquely high energy resolution by independently merging two electron beams with the ion beam. In this work IPF of HD{sup +}, H{sub 3}{sup +} and HF{sup +} has been studied. In the case of HD{sup +} the result of the high resolution experiment shows quantum interferences. Analysis of the quantum oscillations leads to a new understanding of the reaction dynamics. For H{sub 3}{sup +} it was for the first time possible to distinguish different IPF channels and to detect quantum interferences in the data. Finally the IPF of HF{sup +} was investigated in an energy range, where in previous experiments no conclusive results could be obtained. (orig.)

  12. Computational studies of transport in ion channels using metadynamics.

    Furini, Simone; Domene, Carmen

    2016-07-01

    Molecular dynamics simulations have played a fundamental role in numerous fields of science by providing insights into the structure and dynamics of complex systems at the atomistic level. However, exhaustive sampling by standard molecular dynamics is in most cases computationally prohibitive, and the time scales accessible remain significantly shorter than many biological processes of interest. In particular, in the study of ion channels, realistic models to describe permeation and gating require accounting for large numbers of particles and accurate interaction potentials, which severely limits the length of the simulations. To overcome such limitations, several advanced methods have been proposed among which is metadynamics. In this algorithm, an external bias potential to accelerate sampling along selected collective variables is introduced. This bias potential discourages visiting regions of the configurational space already explored. In addition, the bias potential provides an estimate of the free energy as a function of the collective variables chosen once the simulation has converged. In this review, recent contributions of metadynamics to the field of ion channels are discussed, including how metadynamics has been used to search for transition states, predict permeation pathways, treat conformational flexibility that underlies the coupling between gating and permeation, or compute free energy of permeation profiles. This article is part of a Special Issue entitled: Membrane Proteins edited by J.C. Gumbart and Sergei Noskov. PMID:26891818

  13. Electromagnetic instability in an electron beam-ion channel system

    Su, D.; Tang, C. J.

    2009-05-01

    The transverse electromagnetic instability in the electron beam-ion channel system is investigated using kinetic theory. The equilibrium distribution function of a relativistic electron beam, which takes into account a strong ion channel effect, is obtained. The linearized Vlasov equation is solved and the dispersion relation of the system is derived by perturbing the equilibrium with a high frequency electromagnetic wave (EMW). Analysis of the dispersion relation shows that the coupling of the electron beam with the transverse high frequency EMW is achieved through the deflection of the beam electrons due to the synergistic effects of the transverse high frequency EMW and transverse betatron oscillation. The numerical calculation finds that a branch of slow wave instability (SWI) with a wide frequency band is excited. The attenuation index of the SWI increases and its frequency band broadens as the normalized beam radii increases. Besides, the SWI will be suppressed as the longitudinal velocity of the electron beam increases to a certain value; meanwhile, a bunch of fast wave instability (FWI) is excited, which is equal to the increase of the relativistic factor. Also both the SWI and the FWI reach maximum when the EMW frequency meets a resonance condition.

  14. Electromagnetic instability in an electron beam-ion channel system

    The transverse electromagnetic instability in the electron beam-ion channel system is investigated using kinetic theory. The equilibrium distribution function of a relativistic electron beam, which takes into account a strong ion channel effect, is obtained. The linearized Vlasov equation is solved and the dispersion relation of the system is derived by perturbing the equilibrium with a high frequency electromagnetic wave (EMW). Analysis of the dispersion relation shows that the coupling of the electron beam with the transverse high frequency EMW is achieved through the deflection of the beam electrons due to the synergistic effects of the transverse high frequency EMW and transverse betatron oscillation. The numerical calculation finds that a branch of slow wave instability (SWI) with a wide frequency band is excited. The attenuation index of the SWI increases and its frequency band broadens as the normalized beam radii increases. Besides, the SWI will be suppressed as the longitudinal velocity of the electron beam increases to a certain value; meanwhile, a bunch of fast wave instability (FWI) is excited, which is equal to the increase of the relativistic factor. Also both the SWI and the FWI reach maximum when the EMW frequency meets a resonance condition.

  15. Ion Transport Characteristics of Individual Single-walled Carbon Nanotubes Mimic Those of Biological Ion Channels

    Amiri, Hasti; Shepard, Kenneth; Nuckolls, Colin

    2014-03-01

    Transmembrane ionic channels play a crucial role in vital cellular activities by regulating the transport of ions and fluid across the cell membrane. Their structural complexity and flexibility as well as their many unique operational features, however, make their investigation extremely difficult. The simple, atomically smooth and well-defined structure of carbon nanotubes (CNTs) provides an excellent template for studying molecular transport at nanoscale. Additionally, CNTs have been suggested as analogues to biological pores since they share several common features such as nanometer size diameter, hydrophobic core and ultrafast water flow. Functionalizing the nanotube entrance can also mimic the selectivity filter of ion channels. In this work, we experimentally study ionic transport through individual single-walled CNTs connecting two fluid reservoirs as a function of pore properties and electrolyte type and concentration. We provide strong evidence that the electrostatic potentials arising from the ionized carboxyl groups at the pore entrance significantly influence the ion permeation in a manner consistent with a simple electrostatic mechanism. Lastly, the similarities of ionic transport mechanisms between individual single-walled CNTs and protein ion channels are discussed.

  16. Study of elastic scattering between heavy ions. Reaction channel influence

    The role of absorption on the behavior of heavy ion angular distributions and excitaton functions has been investigated on light and medium mass systems. Comparison between 20Ne+12C and 16O+16O systems which lead to the same compound nucleus, shows that it originates from the direct channels strongly coupled to the entrance channel. Structures in the excitation functions occur for almost all the light systems and it is shown that the damping observed for heavier systems such as 40Ca+40Ca, essentially results on the predominance of Coulomb effects which hide the nuclear structure effects. Thus no valuable information on the details of S-matrix can be extracted for such an heavy system. A coherent description of the elastic scattering, based on a splitting of the scattering amplitude into two components, the modulus of each component varying smoothly as a function of energy and angle. The interference between these sub-amplitudes give rise to interference effects in angular distributions and excitation functions. The study of the main reaction channels of the 40Ca+40Ca system - i.e. deep inelastic reactions and fusion - also shows that the closed-shell nature of the interacting nuclei does not play any role in these processes due to the excitation processes in the first stage of the reactions which destroy the specific structure of the nuclei

  17. Energy dependences and product channels of ion-molecule-reactions

    For the investigation of ion-molecule-reactions a drift technique has been developed, making use of selected ion injection into a slow flow drift tube through an aspirator system similar to the one of Adams and Smith but operating under buffer flow rates as small as a few STP cm3 sec-1. Three groups of results have been obtained so far with this apparatus: 1) Proton and Deuteron transfer from Ar H+ and ArD+. The proton and deuteron transfer from ArH+ and ArD+ to H2 and D2 respectively proceeds fast, with rate coefficients close to the theoretical limits. No isotopic exchange is observed in these reactions. Besides these investigations performed in a helium buffer, equilibrium measurements in an argon buffer allows to obtain the equilibrium constant K for the reactions ArH+ + H2 H3+ + Ar in the range from O 2+(4πsub(u)) in the charge transfer of Ar+ with 02. At elevated kinetic energies KEsub(cm) >- 1 eV a considerable fraction of the charge transfer from Ar+ to 02 proceeds via the slightly endoergic channel into 02+(4πsub(u)). This was proved indirectly by reacting the so produced 02+ further with Ar to which 02+(4πsub(u)) does charge transfer with a fast rate2 while 02+(X) cannot. 3) The charge transfer from Ne+ to various neutrals and the respective branching ratios have been investigated from near thermal to a few eV, KEsub(cm). Especially the slow reactions (at room temperatures), such as Ne+ with CH4, CO2 and CO show strong dependences and also their product channels change dramatically with energy, indicating the opening of endoergic channels at higher KEsub(cm). (Author)

  18. Multi-ion conduction bands in a simple model of calcium ion channels

    Kaufman, I; Tindjong, R; McClintock, P V E; Eisenberg, R S

    2012-01-01

    We report self-consistent Brownian dynamics simulations of a simple electrostatic model of the selectivity filters (SF) of calcium ion channels. They reveal regular structure in the conductance and selectivity as functions of the fixed negative charge Qf at the SF. This structure comprises distinct regions of high conductance (conduction bands) M0, M1, M2 separated by regions of zero-conductance (stop-bands). Two of these conduction bands, M1 and M2, demonstrate high calcium selectivity and prominent anomalous mole fraction effects and can be identified with the L-type and RyR calcium channels.

  19. Creation and dynamical co-evolution of electron and ion channel transport barriers

    A wide variety of magnetic confinement devices have found transitions to an enhanced confinement regime. Simple dynamical models have been able to capture much of the dynamics of these barriers however an open question has been the disconnected nature of the electron thermal transport channel sometimes observed in the presence of a standard ('ion channel' barrier. By adding to simple barrier model an evolution equation for electron fluctuations we can investigate the interaction between the formation of the standard ion channel barrier and the somewhat less common electron channel barrier. Barrier formation in the electron channel is even more sensitive to the alignment of the various gradients making up the sheared radial electric field than the ion barrier is. Electron channel heat transport is found to significantly increase after the formation of the ion channel barrier but before the electron channel barrier is formed. This increased transport is important in the barrier evolution. (author)

  20. Creation and dynamical co-evolution of electron and ion channel transport barriers

    A wide variety of magnetic confinement devices have found transitions to an enhanced confinement regime. Simple dynamical models have been able to capture much of the dynamics of these barriers however an open question has been the disconnected nature of the electron thermal transport channel sometimes observed in the presence of a standard ('ion channel') barrier. By adding to simple barrier model an evolution equation for electron fluctuations we can investigate the interaction between the formation of the standard ion channel barrier and the somewhat less common electron channel barrier. Barrier formation in the electron channel is even more sensitive to the alignment of the various gradients making up the sheared radial electric field then the ion barrier is. Electron channel heat transport is found to significantly increase after the formation of the ion channel barrier but before the electron channel barrier is formed. This increased transport is important in the barrier evolution. (author)

  1. Coulomb blockade model of permeation and selectivity in biological ion channels

    Kaufman, Igor Kh.; McClintock, Peter V. E.; Eisenberg, R S

    2015-01-01

    Biological ion channels are protein nanotubes embedded in, and passing through, the bilipid membranes of cells. Physiologically, they are of crucial importance in that they allow ions to pass into and out of cells, fast and efficiently, though in a highly selective way. Here we show that the conduction and selectivity of calcium/sodium ion channels can be described in terms of ionic Coulomb blockade in a simplified electrostatic and Brownian dynamics model of the channel. The Coulomb blockade...

  2. Study of Selectivity and Permeation In Voltage-Gated Ion Channels

    Giri, Janhavi

    2012-01-01

    Ion channels are membrane proteins responsible for an enormous range of biological functions. Ion selectivity and permeation are based on simple laws of physics and chemistry. Ion channels are therefore ideal candidates for physical investigation. A reduced model generates the selectivity of voltage-gated L-type calcium channel under a wide range of ionic conditions using only two parameters with unchanging values. The reasons behind the success of this reduced model are investigated. Monte C...

  3. Investigation of betatron instability in a wiggler pumped ion-channel free electron laser

    Raghavi, A [Physics Department, Payame Noor University, 19395-4697 (Iran, Islamic Republic of); Mehdian, H, E-mail: Raghavi@tmu.ac.ir, E-mail: Mehdian@tmu.ac.ir [Department of Physics, Teacher Training University, Tehran (Iran, Islamic Republic of)

    2011-10-15

    Betatron emission from an ion-channel free electron laser in the presence of a helical wiggler pump and in the high gain regime is studied. The dispersion relation and the frequency of betatron emission are derived. Growth rate is illustrated and maximum growth rate as a function of ion-channel density is considered. Finally, the relation between beam energy, the density of ion channel and the region of betatron emission is discussed.

  4. Target Promiscuity and Heterogeneous Effects of Tarantula Venom Peptides Affecting Na+ and K+ Ion Channels*

    Redaelli, Elisa; Restano Cassulini, Rita; Fuentes Silva, Deyanira; Clement, Herlinda; Schiavon, Emanuele; Zamudio, Fernando Z.; Odell, George; Arcangeli, Annarosa; Clare, Jeffrey J.; Alagón, Alejandro; Rodríguez de la Vega, Ricardo C.; Lourival D. Possani; Wanke, Enzo

    2009-01-01

    Venom-derived peptide modulators of ion channel gating are regarded as essential tools for understanding the molecular motions that occur during the opening and closing of ion channels. In this study, we present the characterization of five spider toxins on 12 human voltage-gated ion channels, following observations about the target promiscuity of some spider toxins and the ongoing revision of their “canonical” gating-modifying mode of action. The peptides were purified de novo from the venom...

  5. Hydrogen peroxide affects ion channels in lily pollen grain protoplasts.

    Breygina, M A; Abramochkin, D V; Maksimov, N M; Yermakov, I P

    2016-09-01

    Ion homeostasis plays a central role in polarisation and polar growth. In several cell types ion channels are controlled by reactive oxygen species (ROS). One of the most important cells in the plant life cycle is the male gametophyte, which grows under the tight control of both ion fluxes and ROS balance. The precise relationship between these two factors in pollen tubes has not been completely elucidated, and in pollen grains it has never been studied to date. In the present study we used a simple model - protoplasts obtained from lily pollen grains at the early germination stage - to reveal the effect of H2 O2 on cation fluxes crucial for pollen germination. Here we present direct evidence for two ROS-sensitive currents on the pollen grain plasma membrane: the hyperpolarisation-activated calcium current, which is strongly enhanced by H2 O2 , and the outward potassium current, which is modestly enhanced by H2 O2 . We used low concentrations of H2 O2 that do not cause an intracellular oxidative burst and do not damage cells, as demonstrated with fluorescent staining. PMID:27115728

  6. Channel waveguides formed by ion implantation of PECVD grown silica

    Low loss channel waveguides have been formed in silica-on-silicon by implantation with 5 MeV Si and Ge ions. In these experiments, the substrate was comprised of an undoped layer of silica (30 μm thick) which was grown by plasma enhanced chemical vapour deposition (PECVD). The optical loss characteristics of the waveguides, as measured at both λ 1300 and 1550 nm, were independent of the implanted ion species. A minimum in the attenuation loss (α) of ∼0.10-0.20 dB/cm was obtained following both a pre-implant (1050oC) and a post-implant (400-500oC) anneal of the waveguides. The ability to produce a minimum in α by pre-implant annealing has been attributed to the thermally induced relaxation of the densified structure in the as-grown layer. Only a comparatively small degree of compaction was measured for Si-implanted samples which did not receive a pre-implant anneal. In contrast, the much larger degree of compaction in the pre-implant annealed samples was similar in magnitiude to that observed in fused silica. These are the first reported examples of ion-implanted waveguides using a substrate of silica grown by PECVD. (author)

  7. Density-functional theory study of gramicidin A ion channel geometry and electronic properties

    Todorović, Milica; Bowler, David R.; Gillan, Michael J.; Miyazaki, Tsuyoshi

    2013-01-01

    Understanding the mechanisms underlying ion channel function from the atomic-scale requires accurate ab initio modelling as well as careful experiments. Here, we present a density functional theory (DFT) study of the ion channel gramicidin A, whose inner pore conducts only monovalent cations and whose conductance has been shown to depend on the side chains of the amino acids in the channel. We investigate the ground-state geometry and electronic properties of the channel in vacuum, focusing o...

  8. The effect of ions, ion channel blockers, and ionophores on uptake of vitellogenin into cockroach follicles.

    Kindle, H; Lanzrein, B; Kunkel, J G

    1990-12-01

    Since calcium plays an important role in vitellogenin binding and uptake in Nauphoeta cinerea and because calcium channels have been described in follicles of this species, we investigated the effect of various ions, ionophores, and ion channel blockers on vitellogenin uptake in vitro. Calcium significantly stimulated vitellogenin uptake; this effect could be substituted best by barium and less well by strontium and magnesium. The stimulatory effect of calcium, and to a certain extent also that of barium, was dependent on the vitellogenin concentration, whereas the effect of strontium and magnesium was not. In the presence of calcium, vitellogenin uptake was inhibited by barium, strontium, and magnesium as well as by the transition elements nickel, cobalt, and zinc, but not by manganese which had a stimulatory effect. Valinomycin, verapamil, tetraethylammonium, and atropine reduced vitellogenin uptake, while amiloride and ouabain were ineffective. Our results indicate that calcium inward (and possibly potassium outward) fluxes play an important role in vitellogenin uptake. PMID:2257971

  9. Free electron laser with linearly polarized wiggler and ion channel guiding

    A free electron laser (FEL) configuration utilizing a linearly polarized wiggler and ion-channel guiding has been studied for axial injection of the electron beam. The interaction results in an imperfect electron trajectory which is a superposition of two simple harmonic oscillations, one at the wiggler frequency and the other at the ion-channel frequency. The possibility of obtaining gain at the upshifted wiggler or the upshifted ion-channel betatron frequency and their odd harmonics has been shown. As a result the FEL can be tuned either by changing the electron energy or the ion-channel density

  10. ModFossa: A library for modeling ion channels using Python.

    Ferneyhough, Gareth B; Thibealut, Corey M; Dascalu, Sergiu M; Harris, Frederick C

    2016-06-01

    The creation and simulation of ion channel models using continuous-time Markov processes is a powerful and well-used tool in the field of electrophysiology and ion channel research. While several software packages exist for the purpose of ion channel modeling, most are GUI based, and none are available as a Python library. In an attempt to provide an easy-to-use, yet powerful Markov model-based ion channel simulator, we have developed ModFossa, a Python library supporting easy model creation and stimulus definition, complete with a fast numerical solver, and attractive vector graphics plotting. PMID:26932271

  11. Multi-ion conduction bands in a simple model of calcium ion channels

    We report self-consistent Brownian dynamics simulations of a simple electrostatic model of the selectivity filters (SF) of calcium ion channels. They reveal regular structure in the conductance and selectivity as functions of the fixed negative charge Qf at the SF. With increasing Qf, there are distinct regions of high conductance (conduction bands) M0, M1, M2 separated by regions of almost zero-conductance (stop-bands). Two of these conduction bands, M1 and M2, are related to the saturated calcium occupancies of P = 1 and P = 2, respectively and demonstrate self-sustained conductivity. Despite the model's limitations, its M1 and M2 bands show high calcium selectivity and prominent anomalous mole fraction effects and can be identified with the L-type and RyR calcium channels. The non-selective band M0 can be identified with a non-selective cation channel, or with OmpF porin. (paper)

  12. Reactive derivatives of gramicidin enable light- and ion-modulated ion channels

    Macrae, Michael X.; Blake, Steven; Mayer, Thomas; Mayer, Michael; Yang, Jerry

    2009-08-01

    Detection of chemical processes on a single molecule scale is the ultimate goal of sensitive analytical assays. We have explored methods to detect chemical analytes in solution using synthetic derivatives of gramicidin A (gA). We exploited the functional properties of an ion channel-forming peptideg--gA--to report changes in the local environment near the opening of these semi-synthetic nanopores upon exposure to specific external stimuli. These peptide-based nanosensors detect reaction-induced changes in the chemical or physical properties of functional groups presented at the opening of the pore. This paper discusses the development of gA-based sensors for detecting external factors such as metal ions in solution or for detecting specific wavelengths of light. We propose that gA-based ion channel sensors offer tremendous potential for ultra sensitive functional detection since a single chemical modification of each individual sensing element can lead to readily detectable changes in channel conductance.

  13. Primers on molecular pathways - ion channels: key regulators of pancreatic physiology

    Banales, J.M. (Jesús M.); Gradilone, S.A. (Sergio A.)

    2009-01-01

    Ion transport across the cellular plasma membrane is important in almost every physiological process. This phenomenon is driven by the coordinated action of carriers, pumps and channels, which move ions in and out the cells and between different organelles. Ion channels are transmembrane proteins that provide a continuous aqueous pore through which ions can selectively move. The interest in these molecules has increased due to the recognition of diverse pathologies related with mutations in g...

  14. Streaming potentials in gramicidin channels measured with ion-selective microelectrodes.

    Tripathi, S; Hladky, S B

    1998-01-01

    Streaming potentials have been measured for gramicidin channels with a new method employing ion-selective microelectrodes. It is shown that ideally ion-selective electrodes placed at the membrane surface record the true streaming potential. Using this method for ion concentrations below 100 mM, approximately seven water molecules are transported whenever a sodium, potassium, or cesium ion, passes through the channel. This new method confirms earlier measurements (Rosenberg, P.A., and A. Finke...

  15. Subsurface and interface channeling of keV ions in graphene/SiC

    Rosandi, Yudi, E-mail: rosandi@physik.uni-kl.de [Fachbereich Physik und Forschungszentrum OPTIMAS, Universität Kaiserslautern, Erwin-Schrödinger-Straße, D-67663 Kaiserslautern (Germany); Department of Physics, Universitas Padjadjaran, Jatinangor, Sumedang 45363 (Indonesia); Urbassek, Herbert M., E-mail: urbassek@rhrk.uni-kl.de [Fachbereich Physik und Forschungszentrum OPTIMAS, Universität Kaiserslautern, Erwin-Schrödinger-Straße, D-67663 Kaiserslautern (Germany)

    2014-12-01

    Using molecular-dynamics simulation, we study the impact of 3 keV Ar and Xe ions on a β-SiC (1 1 1) surface covered by a single graphene layer. At glancing ion incidence angles, we observe the ions to undergo interface channeling between the graphene and the first SiC surface layer. This behavior is particularly pronounced for Xe ions, where at incidence angles of 70–75° more than 50% of the ions are channeled. This process is accompanied by abundant damage production and sputtering in the graphene layer. Similarities and differences to subsurface channeling in elemental materials are discussed.

  16. Universal scalings for laser acceleration of electrons in ion channels

    Khudik, Vladimir; Zhang, Xi; Shvets, Gennady

    2016-01-01

    Direct laser acceleration of electrons in ion channels is investigated in a general case when the laser phase velocity is greater than (or equal to) the speed of light. Using the similarity of the equations of motion for ultra-relativistic electrons, we develop a universal scaling theory that gives the maximum possible energy that can be attained by an electron for given laser and plasma parameters. The theory predicts appearance of forbidden zones in the phase space of the particle, which manifests itself as an energy gain threshold. We apply the developed theory to find the conditions needed for an energy enhancement via a resonant interaction between the third harmonic of betatron oscillations and the laser wave. The theory is also used to analyze electron dynamics in a circularly polarized laser.

  17. The role of flux-focusing in the origin of shoulders in ion channeling angular scans

    We have investigated the effect of ion channeling flux-focusing on the origin of high near-surface shoulders in channeling angular scans of single crystals. We simulate 2 MeV He ion planar channeling in Si{100} and analyze the variation of ion flux distribution within the channel with respect to the angle of incidence. It is observed that at the angle of incidence corresponding to the channeling shoulder, the primary channeling focus overlaps with lattice atoms and dramatically enhances the ion flux density at atomic sites, increasing the ion–atom close encounter probability. We show that the so increased close encounter probability originates high near-surface shoulders in channeling. -- Highlights: ► We study the effect of ion flux-focusing on origin of channeling shoulders. ► We simulate variation of ion channeling flux focus with incidence angle. ► Near channeling critical angle, flux focus superimposes on atomic sites. ► Ion flux focus superposition with atomic sites originates shoulders.

  18. Effect of entrance channel on dynamics of heavy ions collision

    Naderi, D.

    2016-01-01

    A combined dynamical model using concept of dinuclear systems (DNS) and one-dimensional (1D) Langevin equations was applied to investigate the effect of entrance channel on dynamics of heavy ions collision. The 30Si+170Er, 16O+184W and 19F+181Ta reactions which formed the compound nucleus 200Pb have been considered to study this effect. We studied these reactions dynamically and calculated the ratio of evaporation residue cross-section to fusion cross-section (σER/σFus) as a tool for investigation of entrance channel effect. Results of combined model are compared with available experimental data and results of 1D Langevin equations. Obtained results based on combined model are in better agreement with experimental data in comparison with results of Langevin equations. We concluded for 30Si+170Er and 19F+181Ta reactions the results of combined model that support the quasi-fission process are different relative to Langevin dynamical approach, whereas for 16O+184W system the two models give similar results.

  19. Continuum electrostatics fails to describe ion permeation in the gramicidin channel.

    Edwards, Scott; Corry, Ben; Kuyucak, Serdar; Chung, Shin-Ho

    2002-01-01

    We investigate the validity of continuum electrostatics in the gramicidin A channel using a recently determined high-resolution structure. The potential and electric field acting on ions in and around the channel are computed by solving Poisson's equation. These are then used in Brownian dynamics simulations to obtain concentration profiles and the current passing through the channel. We show that regardless of the effective dielectric constant used for water in the channel or the channel pro...

  20. Beam propagation in Cu +-Na + ion exchange channel waveguides

    Villegas Vicencio, L. J.; Khomenko, A. V.; Salazar, D.; Marquez, H. [Centro de Investigacion Cientifica y de Educacion Superior de Ensenada, Baja California (Mexico); Porte, H. [Universite de Franche-Comte, UFR des Sciences et Techniques, Besancon, Cedex (France)

    2001-06-01

    We employ the fast Fourier transform beam propagation method to simulate the propagation of light in graded index channel waveguides, these have been obtained by solid state diffusion of copper ions in soda-lime glass substrates. Longitudinal propagation has been simulated, the input light beam has a gaussian profile. Two cases have been analyzed, in the first, the Gaussian beam is collinear center to center with respect to waveguide; in the second, a small lateral offset and angular tilt have been introduced. Modal beating and bending effects have been founded. We have proven the validity of our numerical results in detailed comparison with experimental data. [Spanish] Se ha empleado el metodo de propagacion de haces por la transformada rapida de Fourier para simular la propagacion de la luz en guias de onda de indice de gradiente. Estas han sido fabricadas por difusion de iones de cobre en estado solido en substratos de vidrios sodicos-calcicos. Se han simulado dos casos, el primero, el perfil de luz de entrada, que es gaussiano, es colineal centro a centro respecto al centro de la guia de ondas: el segundo, se ha dado un pequeno corrimiento lateral y una inclinacion angular. Como consecuencia de los casos anteriores se ha observado efectos de batimiento modal. Los resultados de la simulacion se han validado con resultados experimentales.

  1. Beyond ion-conduction: Channel-dependent and -independent roles of TRP channels during development and tissue homeostasis.

    Vrenken, Kirsten S; Jalink, Kees; van Leeuwen, Frank N; Middelbeek, Jeroen

    2016-06-01

    Transient receptor potential (TRP) channels comprise a family of cation channels implicated in a variety of cellular processes, including proliferation, cell migration and cell survival. As a consequence, members of this ion family play prominent roles during embryonic development, tissue maintenance and cancer progression. Although most TRP channels are non-selective, many cellular responses, mediated by TRP channels, appear to be calcium-dependent. In addition, there is mounting evidence for channel-independent roles for TRP channels. In this review, we will discuss how both these channel-dependent and -independent mechanisms affect cellular programs essential during embryonic development, and how perturbations in these pathways contribute to a variety of pathologies. This article is part of a Special Issue entitled: Calcium and Cell Fate. Guest Editors: Jacques Haiech, Claus Heizmann, Joachim Krebs, Thierry Capiod and Olivier Mignen. PMID:26585368

  2. Direct visualization of the trimeric structure of the ASIC1a channel, using AFM imaging.

    Carnally, Stewart M; Dev, Harveer S; Stewart, Andrew P; Barrera, Nelson P; Van Bemmelen, Miguel X; Schild, Laurent; Henderson, Robert M; Edwardson, J Michael

    2008-08-01

    There has been confusion about the subunit stoichiometry of the degenerin family of ion channels. Recently, a crystal structure of acid-sensing ion channel (ASIC) 1a revealed that it assembles as a trimer. Here, we used atomic force microscopy (AFM) to image unprocessed ASIC1a bound to mica. We detected a mixture of subunit monomers, dimers and trimers. In some cases, triple-subunit clusters were clearly visible, confirming the trimeric structure of the channel, and indicating that the trimer sometimes disaggregated after adhesion to the mica surface. This AFM-based technique will now enable us to determine the subunit arrangement within heteromeric ASICs. PMID:18514062

  3. Direct visualization of the trimeric structure of the ASIC1a channel, using AFM imaging

    There has been confusion about the subunit stoichiometry of the degenerin family of ion channels. Recently, a crystal structure of acid-sensing ion channel (ASIC) 1a revealed that it assembles as a trimer. Here, we used atomic force microscopy (AFM) to image unprocessed ASIC1a bound to mica. We detected a mixture of subunit monomers, dimers and trimers. In some cases, triple-subunit clusters were clearly visible, confirming the trimeric structure of the channel, and indicating that the trimer sometimes disaggregated after adhesion to the mica surface. This AFM-based technique will now enable us to determine the subunit arrangement within heteromeric ASICs

  4. Structural analysis of calmodulin binding to ion channels demonstrates the role of its plasticity in regulation.

    Kovalevskaya, N.V.; Waterbeemd, M. van de; Bokhovchuk, F.M.; Bate, N.; Bindels, R.J.M.; Hoenderop, J.G.J.; Vuister, G.W.

    2013-01-01

    The Ca2+-binding protein calmodulin (CaM) is a well-known regulator of ion-channel activity. Consequently, the Protein Data Bank contains many structures of CaM in complex with different fragments of ion channels that together display a variety of binding modes. In addition to the canonical interact

  5. DMPD: Nucleic acid-sensing TLRs as modifiers of autoimmunity. [Dynamic Macrophage Pathway CSML Database

    Full Text Available 17082566 Nucleic acid-sensing TLRs as modifiers of autoimmunity. Deane JA, Bolland ...S. J Immunol. 2006 Nov 15;177(10):6573-8. (.png) (.svg) (.html) (.csml) Show Nucleic acid-sensing TLRs as modifiers of autoimmunity.... PubmedID 17082566 Title Nucleic acid-sensing TLRs as modifiers of autoimmunity. Aut

  6. Charge fluctuations and their effect on conduction in biological ion channels

    Luchinsky, D G; Kaufman, I; McClintock, P V E; Eisenberg, R S

    2008-01-01

    The effect of fluctuations on the conductivity of ion channels is investigated. It is shown that modulation of the potential barrier at the selectivity site due to electrostatic amplification of charge fluctuations at the channel mouth exerts a leading-order effect on the channel conductivity. A Brownian dynamical model of ion motion in a channel is derived that takes into account both fluctuations at the channel mouth and vibrational modes of the wall. The charge fluctuations are modeled as a short noise flipping the height of the potential barrier. The wall fluctuations are introduced as a slow vibrational mode of protein motion that modulates ion conductance both stochastically and periodically. The model is used to estimate the contribution of the electrostatic amplification of charge fluctuations to the conductivity of ion channels.

  7. Three homologous subunits form a high affinity peptide-gated ion channel in Hydra

    Dürrnagel, Stefan; Kuhn, Anne; Tsiairis, Charisios D;

    2010-01-01

    NaC2/3/5 channel has altered pore properties and amiloride affinity, more similarly to other DEG/ENaC channels. Collectively, our results suggest that the three homologous subunits HyNaC2, -3, and -5 form a peptide-gated ion channel in Hydra that could contribute to fast synaptic transmission....

  8. Structure and Permeability of Ion-channels by Integrated AFM and Waveguide TIRF Microscopy

    Srinivasan Ramachandran; Fernando Teran Arce; Patel, Nirav R.; Quist, Arjan P.; Cohen, Daniel A.; Ratnesh Lal

    2014-01-01

    Membrane ion channels regulate key cellular functions and their activity is dependent on their 3D structure. Atomic force microscopy (AFM) images 3D structure of membrane channels placed on a solid substrate. Solid substrate prevents molecular transport through ion channels thus hindering any direct structure-function relationship analysis. Here we designed a ~70 nm nanopore to suspend a membrane, allowing fluidic access to both sides. We used these nanopores with AFM and total internal refle...

  9. Chemoselective tarantula toxins report voltage activation of wild-type ion channels in live cells

    Tilleya, DC; Euma, KS; Fletcher-Taylor, S; Austina, DC; Dupré, C; Patrón, LA; Garcia, RL; Lam, K; Yarov-Yarovoy, V; Cohenc, BE; Sack, JT

    2014-01-01

    Electrically excitable cells, such as neurons, exhibit tremendous diversity in their firing patterns, a consequence of the complex collection of ion channels present in any specific cell. Although numerous methods are capable of measuring cellular electrical signals, understanding which types of ion channels give rise to these signals remains a significant challenge. Here, we describe exogenous probes which use a novel mechanism to report activity of voltage-gated channels. We have synthesize...

  10. Shielding analysis for a heavy ion beam chamber with plasma channels for ion transport

    Sawan, M.E.; Peterson, R.R.; Yu, S.

    2000-06-28

    Neutronics analysis has been performed to assess the shielding requirements for the insulators and final focusing magnets in a modified HYLIFE-II target chamber that utilizes pre-formed plasma channels for heavy ion beam transport. Using 65 cm thick Flibe jet assemblies provides adequate shielding for the electrical insulator units. Additional shielding is needed in front of the final focusing superconducting quadrupole magnets. A shield with a thickness varying between 45 and 90 cm needs to be provided in front of the quadrupole unit. The final laser mirrors located along the channel axis are in the direct line-of-sight of source neutrons. Neutronics calculations were performed to determine the constraints on the placement of these mirrors to be lifetime components.

  11. Charge exchange and energy loss of slowed down heavy ions channeled in silicon crystals

    This work is devoted to the study of charge exchange processes and of the energy loss of highly charged heavy ions channeled in thin silicon crystals. The two first chapters present the techniques of heavy ion channeling in a crystal, the ion-electron processes and the principle of our simulations (charge exchange and trajectory of channeled ions). The next chapters describe the two experiments performed at the GSI facility in Darmstadt, the main results of which follow: the probability per target atom of the mechanical capture (MEC) of 20 MeV/u U91+ ions as a function of the impact parameter (with the help of our simulations), the observation of the strong polarization of the target electron gas by the study of the radiative capture and the slowing down of Pb81+ ions from 13 to 8,5 MeV/u in channeling conditions for which electron capture is strongly reduced. (author)

  12. Relevance of Viroporin Ion Channel Activity on Viral Replication and Pathogenesis.

    Nieto-Torres, Jose L; Verdiá-Báguena, Carmina; Castaño-Rodriguez, Carlos; Aguilella, Vicente M; Enjuanes, Luis

    2015-07-01

    Modification of host-cell ionic content is a significant issue for viruses, as several viral proteins displaying ion channel activity, named viroporins, have been identified. Viroporins interact with different cellular membranes and self-assemble forming ion conductive pores. In general, these channels display mild ion selectivity, and, eventually, membrane lipids play key structural and functional roles in the pore. Viroporins stimulate virus production through different mechanisms, and ion channel conductivity has been proved particularly relevant in several cases. Key stages of the viral cycle such as virus uncoating, transport and maturation are ion-influenced processes in many viral species. Besides boosting virus propagation, viroporins have also been associated with pathogenesis. Linking pathogenesis either to the ion conductivity or to other functions of viroporins has been elusive for a long time. This article summarizes novel pathways leading to disease stimulated by viroporin ion conduction, such as inflammasome driven immunopathology. PMID:26151305

  13. Relevance of Viroporin Ion Channel Activity on Viral Replication and Pathogenesis

    Jose L. Nieto-Torres

    2015-07-01

    Full Text Available Modification of host-cell ionic content is a significant issue for viruses, as several viral proteins displaying ion channel activity, named viroporins, have been identified. Viroporins interact with different cellular membranes and self-assemble forming ion conductive pores. In general, these channels display mild ion selectivity, and, eventually, membrane lipids play key structural and functional roles in the pore. Viroporins stimulate virus production through different mechanisms, and ion channel conductivity has been proved particularly relevant in several cases. Key stages of the viral cycle such as virus uncoating, transport and maturation are ion-influenced processes in many viral species. Besides boosting virus propagation, viroporins have also been associated with pathogenesis. Linking pathogenesis either to the ion conductivity or to other functions of viroporins has been elusive for a long time. This article summarizes novel pathways leading to disease stimulated by viroporin ion conduction, such as inflammasome driven immunopathology.

  14. Ion Tracks for Micro- and Nanofabrication : From Single Channels to Superhydrophobic Surfaces

    Spohr, Reimar

    2010-01-01

    A method is described for preset-count irradiations between 1 and 100 ions singling-out individual ions from an ion beam with more than a billion ions arriving per second. The ion tracks are etched in a conductometric system with real-time evaluation of the acquired data. The etch process can be interrupted when reaching a preset channel diameter. Cylindrical channels are obtained by adding surfactants to the etch solution forming a self-assembled barrier between etching medium and polymer. A...

  15. Global structural changes of an ion channel during its gating are followed by ion mobility mass spectrometry

    Konijnenberg, Albert; Yilmaz, Duygu; Ingólfsson, Helgi I; Dimitrova, Anna; Marrink, Siewert J; Li, Zhuolun; Vénien-Bryan, Catherine; Sobott, Frank; Koçer, Armağan

    2014-01-01

    Mechanosensitive ion channels are sensors probing membrane tension in all species; despite their importance and vital role in many cell functions, their gating mechanism remains to be elucidated. Here, we determined the conditions for releasing intact mechanosensitive channel of large conductance (M

  16. Obtaining Spheroplasts of Armored Dinoflagellates and First Single-Channel Recordings of Their Ion Channels Using Patch-Clamping

    Ilya Pozdnyakov

    2014-09-01

    Full Text Available Ion channels are tightly involved in various aspects of cell physiology, including cell signaling, proliferation, motility, endo- and exo-cytosis. They may be involved in toxin production and release by marine dinoflagellates, as well as harmful algal bloom proliferation. So far, the patch-clamp technique, which is the most powerful method to study the activity of ion channels, has not been applied to dinoflagellate cells, due to their complex cellulose-containing cell coverings. In this paper, we describe a new approach to overcome this problem, based on the preparation of spheroplasts from armored bloom-forming dinoflagellate Prorocentrum minimum. We treated the cells of P. minimum with a cellulose synthesis inhibitor, 2,6-dichlorobenzonitrile (DCB, and found out that it could also induce ecdysis and arrest cell shape maintenance in these microalgae. Treatment with 100–250 µM DCB led to an acceptable 10% yield of P. minimum spheroplasts and was independent of the incubation time in the range of 1–5 days. We show that such spheroplasts are suitable for patch-clamping in the cell-attached mode and can form 1–10 GOhm patch contact with a glass micropipette, allowing recording of ion channel activity. The first single-channel recordings of dinoflagellate ion channels are presented.

  17. Ovarian cancer: Ion channel and aquaporin expression as novel targets of clinical potential.

    Frede, Julia; Fraser, Scott P; Oskay-Özcelik, Gülten; Hong, Yeosun; Ioana Braicu, E; Sehouli, Jalid; Gabra, Hani; Djamgoz, Mustafa B A

    2013-07-01

    Ovarian cancer is associated with limited overall survival, due to problems in early detection and therapy. Membrane ion channels have been proposed to play a significant, concerted role in the cancer process, from initial proliferation to metastasis, and promise to be early, functional biomarkers. We review the evidence for ion channel and aquaporin expression and functioning in human ovarian cancer cells and tissues. In vitro, K(+) channels, mainly voltage-gated, including Ca(2+)-activated channels, have been found to control the cell cycle, as in other cancers. Voltage-gated, volume-regulated and intracellular Cl(-) channels have been detected in vitro and in vivo and shown to be involved in proliferation, adhesion and invasion. Evidence for 'transient receptor potential', voltage-gated sodium and calcium channels, which have been shown to contribute to pathogenesis of other carcinomas, is also emerging in ovarian cancer. Aquaporins may be involved in cell growth, migration and formation of ascites via increased water permeability of micro-vessels. It is concluded that functional expression of ion channels and their regulation by steroid hormones and growth factors are an integral part of ovarian cancer development and progression. Furthermore, ion channels may be involved in multidrug resistance, commonly associated with treatment of ovarian cancer. We propose that ion channel studies can facilitate our understanding of the pathobiology of ovarian cancer and, ultimately, can serve as viable novel targets for its clinical management. PMID:23683551

  18. Storable droplet interface lipid bilayers for cell-free ion channel studies.

    Jung, Sung-Ho; Choi, Sangbaek; Kim, Young-Rok; Jeon, Tae-Joon

    2012-01-01

    An artificially created lipid bilayer is an important platform in studying ion channels and engineered biosensor applications. However, a lipid bilayer created using conventional techniques is fragile and short-lived, and the measurement of ion channels requires expertise and laborious procedures, precluding practical applications. Here, we demonstrate a storable droplet lipid bilayer precursor frozen with ion channels, resulting in a droplet interface bilayer upon thawing. A small vial with an aqueous droplet in organic solution was flash frozen in -80 °C methanol immediately after an aqueous droplet was introduced into the organic solution and gravity draws the droplet down to the interface upon thawing. A lipid bilayer created along the interface using this method had giga-ohm resistance and typical specific capacitance values. The noise level of this system is favorably comparable to the conventional system. The subsequent incorporation of ion channels, alpha-hemolysin and gramicidin A, showed typical conductance values consistent with those in previous literatures. This novel system to create a lipid bilayer as a whole can be automated from its manufacture to use and indefinitely stored when frozen. As a result, ion channel measurements can be carried out in any place, increasing the accessibility of ion channel studies as well as a number of applications, such as biosensors, ion channel drug screening, and biophysical studies. PMID:21909672

  19. Natural products as tools for studies of ligand-gated ion channels

    Strømgaard, Kristian

    2005-01-01

    in the brain. Historically, natural products have been used extensively in biomedical studies and ultimately as drugs or leads for drug design. In studies of ligand-gated ion channels, natural products have been essential for the understanding of their structure and function. In the following a short......Ligand-gated ion channels, or ionotropic receptors, constitute a group of membrane-bound proteins that regulate the flux of ions across the cell membrane. In the brain, ligand-gated ion channels mediate fast neurotransmission. They are crucial for normal brain function and involved in many diseases...... survey of natural products and their use in studies of ligand-gated ion channels is given....

  20. Ion Channels in Plant Bioenergetic Organelles, Chloroplasts and Mitochondria: From Molecular Identification to Function.

    Carraretto, Luca; Teardo, Enrico; Checchetto, Vanessa; Finazzi, Giovanni; Uozumi, Nobuyuki; Szabo, Ildiko

    2016-03-01

    Recent technical advances in electrophysiological measurements, organelle-targeted fluorescence imaging, and organelle proteomics have pushed the research of ion transport a step forward in the case of the plant bioenergetic organelles, chloroplasts and mitochondria, leading to the molecular identification and functional characterization of several ion transport systems in recent years. Here we focus on channels that mediate relatively high-rate ion and water flux and summarize the current knowledge in this field, focusing on targeting mechanisms, proteomics, electrophysiology, and physiological function. In addition, since chloroplasts evolved from a cyanobacterial ancestor, we give an overview of the information available about cyanobacterial ion channels and discuss the evolutionary origin of chloroplast channels. The recent molecular identification of some of these ion channels allowed their physiological functions to be studied using genetically modified Arabidopsis plants and cyanobacteria. The view is emerging that alteration of chloroplast and mitochondrial ion homeostasis leads to organelle dysfunction, which in turn significantly affects the energy metabolism of the whole organism. Clear-cut identification of genes encoding for channels in these organelles, however, remains a major challenge in this rapidly developing field. Multiple strategies including bioinformatics, cell biology, electrophysiology, use of organelle-targeted ion-sensitive probes, genetics, and identification of signals eliciting specific ion fluxes across organelle membranes should provide a better understanding of the physiological role of organellar channels and their contribution to signaling pathways in plants in the future. PMID:26751960

  1. Relevance of quantum mechanics on some aspects of ion channel function

    Roy, Sisir; Llinás, Rodolfo

    2009-01-01

    Mathematical modeling of ionic diffusion along K ion channels indicates that such diffusion is oscillatory, at the weak non-Markovian limit. This finding leads us to derive a Schrödinger–Langevin equation for this kind of system within the framework of stochastic quantization. The Planck’s constant is shown to be relevant to the Lagrangian action at the level of a single ion channel. This sheds new light on the issue of applicability of quantum formalism to ion channel dynamics and to the phy...

  2. Ferritin Ion Channel Disorder Inhibits Fe(II)/O2 Reactivity at Distant Sites

    Tosha, Takehiko; Behera, Rabindra K.; Theil, Elizabeth C.

    2012-01-01

    Ferritins, a complex, mineralized, protein nanocage family essential for life, provide iron concentrates and oxidant protection. Protein based ion channels and Fe(II)/O2 catalysis initiate conversion of thousands of Fe atoms to caged, ferritin Fe2O3•H2O minerals. The ion channels consist of six helical segments, contributed by 3 of 12 or 24 polypeptide subunits, around the three-fold cage axes. The channel structure guides entering Fe(II) ions toward multiple, catalytic, diiron sites buried i...

  3. Comparing ion conductance recordings of synthetic lipid bilayers with cell membranes containing TRP channels

    Laub, Katrine R; Blicher, Andreas; Madsen, Soren B; Luckhoff, Andreas; Heimburg, Thomas

    2011-01-01

    In this article we compare electrical conductance events from single channel recordings of three TRP channel proteins (TRPA1, TRPM2 and TRPM8) expressed in human embryonic kidney cells with channel events recorded on synthetic lipid membranes close to melting transitions. Ion channels from the TRP family are involved in a variety of sensory processes including thermo- and mechano-reception. Synthetic lipid membranes close to phase transitions display channel-like events that respond to stimuli related to changes in intensive thermodynamic variables such as pressure and temperature. TRP channel activity is characterized by typical patterns of current events dependent on the type of protein expressed. Synthetic lipid bilayers show a wide spectrum of electrical phenomena that are considered typical for the activity of protein ion channels. We find unitary currents, burst behavior, flickering, multistep-conductances, and spikes behavior in both preparations. Moreover, we report conductances and lifetimes for lipi...

  4. Probing conformational changes of gramicidin ion channels by single-molecule patch-clamp fluorescence microscopy

    Harms, Gregory S.; Orr, Galya; Montal, Mauricio; Thrall, Brian D.; Colson, Steve D.; Lu, H Peter

    2003-09-01

    Stochastic and inhomogeneous conformational changes often regulate the dynamics of ion channels. Such inhomogeneity makes it difficult, if not impossible; to be characterized not only by ensemble-averaged experiments by also by single-channel patch recording that does not specifically probe the associated conformational changes. Here, we report on our work using a new approach combining single-molecule fluorescence spectroscopy and single-channel patch recording to investigate conformational changes of individual gramicidin ion channels. We observed fluorescence self-quenching and single-pair fluorescence resonance energy transfer (spFRET) from dye-labeled gramicidin dimmers within the channel was open. We also observed that the efficiency of self-quenching and spFRETS is widely distributed when the channel is closed. Our results strongly suggest a hitherto undetectable correlation of multiple conformational states of the gramicidin channel associated with closed and open states under physiologically-related conditions.

  5. Three Homologous Subunits Form a High Affinity Peptide-gated Ion Channel in Hydra*

    Dürrnagel, Stefan; Kuhn, Anne; Tsiairis, Charisios D.; Williamson, Michael; Kalbacher, Hubert; Grimmelikhuijzen, Cornelis J. P.; Holstein, Thomas W.; Gründer, Stefan

    2010-01-01

    Recently, three ion channel subunits of the degenerin (DEG)/epithelial Na+ channel (ENaC) gene family have been cloned from the freshwater polyp Hydra magnipapillata, the Hydra Na+ channels (HyNaCs) 2–4. Two of them, HyNaC2 and HyNaC3, co-assemble to form an ion channel that is gated by the neuropeptides Hydra-RFamides I and II. The HyNaC2/3 channel is so far the only cloned ionotropic receptor from cnidarians and, together with the related ionotropic receptor FMRFamide-activated Na+ channel (FaNaC) from snails, the only known peptide-gated ionotropic receptor. The HyNaC2/3 channel has pore properties, like a low Na+ selectivity and a low amiloride affinity, that are different from other channels of the DEG/ENaC gene family, suggesting that a component of the native Hydra channel might still be lacking. Here, we report the cloning of a new ion channel subunit from Hydra, HyNaC5. The new subunit is closely related to HyNaC2 and -3 and co-localizes with HyNaC2 and -3 to the base of the tentacles. Coexpression in Xenopus oocytes of HyNaC5 with HyNaC2 and -3 largely increases current amplitude after peptide stimulation and affinity of the channel to Hydra-RFamides I and II. Moreover, the HyNaC2/3/5 channel has altered pore properties and amiloride affinity, more similarly to other DEG/ENaC channels. Collectively, our results suggest that the three homologous subunits HyNaC2, -3, and -5 form a peptide-gated ion channel in Hydra that could contribute to fast synaptic transmission. PMID:20159980

  6. Sour ageusia in two individuals implicates ion channels of the ASIC and PKD families in human sour taste perception at the anterior tongue.

    Taufiqul Huque

    Full Text Available BACKGROUND: The perception of sour taste in humans is incompletely understood at the receptor cell level. We report here on two patients with an acquired sour ageusia. Each patient was unresponsive to sour stimuli, but both showed normal responses to bitter, sweet, and salty stimuli. METHODS AND FINDINGS: Lingual fungiform papillae, containing taste cells, were obtained by biopsy from the two patients, and from three sour-normal individuals, and analyzed by RT-PCR. The following transcripts were undetectable in the patients, even after 50 cycles of amplification, but readily detectable in the sour-normal subjects: acid sensing ion channels (ASICs 1a, 1beta, 2a, 2b, and 3; and polycystic kidney disease (PKD channels PKD1L3 and PKD2L1. Patients and sour-normals expressed the taste-related phospholipase C-beta2, the delta-subunit of epithelial sodium channel (ENaC and the bitter receptor T2R14, as well as beta-actin. Genomic analysis of one patient, using buccal tissue, did not show absence of the genes for ASIC1a and PKD2L1. Immunohistochemistry of fungiform papillae from sour-normal subjects revealed labeling of taste bud cells by antibodies to ASICs 1a and 1beta, PKD2L1, phospholipase C-beta2, and delta-ENaC. An antibody to PKD1L3 labeled tissue outside taste bud cells. CONCLUSIONS: These data suggest a role for ASICs and PKDs in human sour perception. This is the first report of sour ageusia in humans, and the very existence of such individuals ("natural knockouts" suggests a cell lineage for sour that is independent of the other taste modalities.

  7. Inhibitory effects of berberine on ion channels of rat hepatocytes

    Fang Wang; Hong-Yi Zhou; Gang Zhao; Li-Ying Fu; Lan Cheng; Jian-Guo Chen; Wei-Xing Yao

    2004-01-01

    AIM: To examine the effects of berberine, an isoquinoline alkaloid with a long history used as a tonic remedy for liver and heart, on ion channels of isolated rat hepatocytes.METHODS: Tight-seal whole-cell patch-clamp techniques were performed to investigate the effects of berberine on the delayed outward potassium currents (IK), inward rectifier potassium currents (IK1) and Ca2+ release-activated Ca2+currents (ICRAC) in enzymatically isolated rat hepatocytes.RESULTS: Berberine 1-300 nmol/L reduced IK in a concentration dependent manner with EC50 of 38.86±5.37 μmol/L and nH of 0.82±0.05 (n = 8). When the bath solution was changed to tetraethylammonium (TEA) 8 mmol/L, IK was inhibited.Berberine 30 μmol/L reduced IK at all examined membrane potentials, especially at potentials positive to +60 mV (n = 8,P<0.05 or P<0.01 vs control). Berberine had mild inhibitory effects on IK1 in rat hepatocytes. Berberine 1-300 μmol/L also inhibited ICRAC in a concentration-dependent fashion.The fitting parameters were EC50 = 47.20±10.86 μmol/L,nH = 0.71±0.09 (n = 8). The peak value of ICRAC in the Ⅰ-Ⅴrelationship was decreased by berberine 30 μmol/L at potential negative to -80 mV (n = 8, P<0.05 vscontrol). But the reverse potential of ICRAC occurred at voltage 0 mV in all cells.CONCLUSION: Berberine has inhibitory effects on potassium and calcium currents in isolated rat hepatocytes, which may be involved in hepatoprotection.

  8. Molecular Dynamics Simulation of the Antiamoebin Ion Channel: Linking Structure and Conductance

    Wilson, Michael A.; Wei, Chenyu; Bjelkmar, Paer; Wallace, B. A.; Pohorille, Andrew

    2011-01-01

    Molecular dynamics simulations were carried out in order to ascertain which of the potential multimeric forms of the transmembrane peptaibol channel, antiamoebin, is consistant with its measured conductance. Estimates of the conductance obtained through counting ions that cross the channel and by solving the Nernst-Planck equation yield consistent results, indicating that the motion of ions inside the channel can be satisfactorily described as diffusive.The calculated conductance of octameric channels is markedly higher than the conductance measured in single channel recordings, whereas the tetramer appears to be non-conducting. The conductance of the hexamer was estimated to be 115+/-34 pS and 74+/-20 pS, at 150 mV and 75 mV, respectively, in satisfactory agreement with the value of 90 pS measured at 75 mV. On this basis we propose that the antiamoebin channel consists of six monomers. Its pore is large enough to accommodate K(+) and Cl(-) with their first solvation shells intact. The free energy barrier encountered by K(+) is only 2.2 kcal/mol whereas Cl(-) encounters a substantially higher barrier of nearly 5 kcal/mol. This difference makes the channel selective for cations. Ion crossing events are shown to be uncorrelated and follow Poisson statistics. keywords: ion channels, peptaibols, channel conductance, molecular dynamics

  9. Quantum decoherence time scales for ionic superposition states in ion channels

    Salari, V.; Moradi, N.; Sajadi, M.; Fazileh, F.; Shahbazi, F.

    2015-03-01

    There are many controversial and challenging discussions about quantum effects in microscopic structures in neurons of the brain and their role in cognitive processing. In this paper, we focus on a small, nanoscale part of ion channels which is called the "selectivity filter" and plays a key role in the operation of an ion channel. Our results for superposition states of potassium ions indicate that decoherence times are of the order of picoseconds. This decoherence time is not long enough for cognitive processing in the brain, however, it may be adequate for quantum superposition states of ions in the filter to leave their quantum traces on the selectivity filter and action potentials.

  10. Fast ions channeling in nanotubes of weak chaotic curvature

    Sabirov, A.S., E-mail: kansas57@rambler.ru

    2015-07-15

    The model of random smooth curvature for carbon nanotubes within the framework of the theory of random processes is proposed for describing the particle channeling in carbon nanotubes. The degree of influence of random nanotube axis deviation from the straight line on the particle channeling has been investigated with a specific choice for particular type of random processes. The conditions, at which the inaccuracy in given random type can be neglected at channeling, have been examined.

  11. Suppression of nano-channel ion conductance by electro-osmotic flow

    Liu, Yang; Zhu, Xin; Ran, Qiushi; Dutton, Robert

    2016-01-01

    This theoretical study concerns a basic understanding of ion transport in nano-channels that have weakly overlapping electric double layers. Numerical simulations reveal that the electro-osmotic flow (EOF) interplays with the concentration-polarization process and drives the ion depletion zone into the channels, thus significantly suppressing the channel conductance. The conductance may be restored at high electrical biases in the presence of recirculating vortices within the channels. Further analysis are conducted based on a 1-D, long channel model, and analytic expressions derived to quantitatively account for the EOF-driven ion depletion process. A limiting-conductance behavior is revealed as intrinsically different from the classical limiting-current behavior.

  12. The complementary use of electron backscatter diffraction and ion channelling imaging for the characterization of nanotwins

    Alimadadi, Hossein; da Silva Fanta, Alice Bastos; Pantleon, Karen

    2013-01-01

    On the example of electrodeposited nickel films, it is shown that unique information on twins with dimensions on the nanoscale can be obtained by suitable combination of ion channelling imaging and electron backscatter diffraction analysis, whereas both (routine) single techniques cannot meet the...... for adjusting EBSD data based on ion channelling images are proposed. Thorough selection of the complementary techniques opens future perspectives for the investigation of other challenging samples with nanoscale features in the microstructure.......On the example of electrodeposited nickel films, it is shown that unique information on twins with dimensions on the nanoscale can be obtained by suitable combination of ion channelling imaging and electron backscatter diffraction analysis, whereas both (routine) single techniques cannot meet the...... this information with ion channelling imaging provides more representative insights into the microstructure, because it supplements the quantitative investigation of the number and width of twin lamellae with additional crystallographic orientation analysis provided by EBSD. To this end, two methods...

  13. Coupling mechanical forces to electrical signaling: molecular motors and the intracellular transport of ion channels.

    Barry, Joshua; Gu, Chen

    2013-04-01

    Proper localization of various ion channels is fundamental to neuronal functions, including postsynaptic potential plasticity, dendritic integration, action potential initiation and propagation, and neurotransmitter release. Microtubule-based forward transport mediated by kinesin motors plays a key role in placing ion channel proteins to correct subcellular compartments. PDZ- and coiled-coil-domain proteins function as adaptor proteins linking ionotropic glutamate and GABA receptors to various kinesin motors, respectively. Recent studies show that several voltage-gated ion channel/transporter proteins directly bind to kinesins during forward transport. Three major regulatory mechanisms underlying intracellular transport of ion channels are also revealed. These studies contribute to understanding how mechanical forces are coupled to electrical signaling and illuminating pathogenic mechanisms in neurodegenerative diseases. PMID:22910031

  14. Nanoscale-targeted patch-clamp recordings of functional presynaptic ion channels.

    Novak, Pavel; Gorelik, Julia; Vivekananda, Umesh; Shevchuk, Andrew I; Ermolyuk, Yaroslav S; Bailey, Russell J; Bushby, Andrew J; Moss, Guy W J; Rusakov, Dmitri A; Klenerman, David; Kullmann, Dimitri M; Volynski, Kirill E; Korchev, Yuri E

    2013-09-18

    Direct electrical access to presynaptic ion channels has hitherto been limited to large specialized terminals such as the calyx of Held or hippocampal mossy fiber bouton. The electrophysiology and ion-channel complement of far more abundant small synaptic terminals (≤ 1 μm) remain poorly understood. Here we report a method based on superresolution scanning ion conductance imaging of small synapses in culture at approximately 100-150 nm 3D resolution, which allows presynaptic patch-clamp recordings in all four configurations (cell-attached, inside-out, outside-out, and whole-cell). Using this technique, we report presynaptic recordings of K(+), Na(+), Cl(-), and Ca(2+) channels. This semiautomated approach allows direct investigation of the distribution and properties of presynaptic ion channels at small central synapses. PMID:24050398

  15. Upscaling and automation of electrophysiology: toward high throughput screening in ion channel drug discovery

    Asmild, Margit; Oswald, Nicholas; Krzywkowski, Karen M;

    2003-01-01

    Effective screening of large compound libraries in ion channel drug discovery requires the development of new electrophysiological techniques with substantially increased throughputs compared to the conventional patch clamp technique. Sophion Bioscience is aiming to meet this challenge by...

  16. The molecular mechanism of multi-ion conduction in K{sup +} channels

    Gwan, J.F.

    2007-01-19

    Steered molecular dynamics (SMD) simulation method is applied to a fully solvated membrane-channel model for studying the ion permeation process in potassium channels. The channel model is based on the crystallographic structure of a prokaryotic K{sup +} channel- the KcsA channel, which is a representative of most known eukaryotic K{sup +} channels. It has long been proposed that the ion transportation in a conventional K{sup +}-channel follows a multi-ion fashion: permeating ions line in a queue in the channel pore and move in a single file through the channel. The conventional view of multi-ion transportation is that the electrostatic repulsion between ions helps to overcome the attraction between ions and the channel pore. In this study, we proposed two SMD simulation schemes, referred to 'the single-ion SMD' simulations and 'the multi-ion SMD' simulations. Concerted movements of a K-W-K sequence in the selectivity filter were observed in the single-ion SMD simulations. The analysis of the concerted movement reveals the molecular mechanism of the multi-ion transportation. It shows that, rather than the long range electrostatic interaction, the short range polar interaction is a more dominant factor in the multi-ion transportation. The polar groups which play a role in the concerted transportation are the water molecules and the backbone carbonyl groups of the selectivity filter. The polar interaction is sensitive to the relative orientation of the polar groups. By changing the orientation of a polar group, the interaction may switch from attractive to repulsive or vice versa. By this means, the energy barrier between binding sites in the selectivity filter can be switched on and off, and therefore the K{sup +} may be able to move to the neighboring binding site without an external driving force. The concerted transportation in the selectivity filter requires a delicate cooperation between K{sup +}, waters, and the backbone carbonyl groups. To

  17. RADIATIVE ELECTRON CAPTURE BY FAST HIGHLY STRIPPED HEAVY IONS CHANNELED IN A THIN CRYSTAL

    Andriamonje, S.; Chevallier, M.; C. Cohen; Dural, J.; Gaillard, M.; Genre, R.; Hage-Ali, M.; Kirsch, R.; L'Hoir, A.; Mazuy, B.; Mory, J.; Moulin, J.; Poizat, J. -C.; Remillieux, J.; Schmaus, Didier

    1989-01-01

    Interaction of moving ions with single crystals is known to be very sensitive to the orientation of the incident beam with respect to the crystalline directions of the target. We have shown that channeling conditions strongly modify the slowing down and the charge exchange processes of high energy heavy ions. The reason is that channeled particles are prevented from approaching the target atoms, and then can interact only with loosely bound target electrons. This results not only in drastical...

  18. Calculating Conductance of Ion Channels – Linking Molecular Dynamics and Electrophysiology

    Molecular dynamics computer simulations were combined with an electrodiffusion model to compute conduction of simple ion channels. The main assumptions of the model, and the consistency, efficiency and accuracy of the ion current calculations were tested and found satisfactory. The calculated current-voltage dependence for a synthetic peptide channel is in agreement with experiments and correctly captures the asymmetry of current with respect to applied field

  19. Increased Throughput in Ion Channel Drug Development and Exploration by Automation of Electrophysiology

    Willumsen, N. J.

    2006-01-01

    Ion channels constitute macromolecular communication gates that are present in the membranes of all living cells. They are crucial for practically any physiological process, either as chemical or electrical signal transducers or as transmembrane routes for the bulk transport of salts. Not surpris...... surprisingly, ion channels have become important targets for the treatment of a variety of human disorders that affect cell signaling (e.g., epilepsy and cardiac arrhythmias) or salt balance (e.g., diarrhea and cystic fibrosis)....

  20. Biomimetic heterogeneous multiple ion channels: a honeycomb structure composite film generated by breath figures.

    Han, Keyu; Heng, Liping; Wen, Liping; Jiang, Lei

    2016-06-16

    We design a novel type of artificial multiple nanochannel system with remarkable ion rectification behavior via a facile breath figure (BF) method. Notably, even though the charge polarity in the channel wall reverses under different pH values, this nanofluidic device displays the same ionic rectification direction. Compared with traditional nanochannels, this composite multiple ion channel device can be more easily obtained and has directional ionic rectification advantages, which can be applied in many fields. PMID:27270836

  1. Radiation emission in electron-tungsten ions collisions: Polarization vs static channels

    Astapenko, V.A., E-mail: v.a.astapenko@gmail.com [Moscow Institute of Physics and Technology (Russian Federation); Lisitsa, V.S., E-mail: lisitsa@nfi.kiae.ru [RSC ' Kurchatov Institute' (Russian Federation); Rosmej, F.B., E-mail: frank.rosmej@upmc.fr [Universite Pierre et Marie Curie, LULI, Paris (France)

    2011-06-13

    The detailed comparison between static (frozen core) and polarization radiation emission channel in electron-tungsten ions collisions is presented. Both Bremsstrahlung and radiative recombination spectra are calculated for different ion charges Z{sub i} and electron energies E. The consideration is based on quasiclassical approach using statistical (Thomas-Fermi) and local plasma frequency models for ion cores as well as rotational approximation for emission spectra. The frequency and energy domains where polarization channel is comparable or even dominates over static one are determined. The results are of interest for modern magnetic fusion investigations of plasmas with tungsten impurity. -- Highlights: → Static and polarization radiation in electron-tungsten ions collisions is investigated. → Both Bremsstrahlung and radiative recombination spectra are calculated. → Different ion charges and electron energies are taken into consideration. → We determine the ranges of parameters where polarization channel is important.

  2. Charge and Mass Effects on Low Energy Ion Channeling in Carbon Nanotubes

    LI Yong; ZHENG Li-Ping; ZHANG Wei; XV Zi-Jian; REN Cui-Lan; HUAI Ping; ZHU Zhi-Yuan

    2011-01-01

    @@ Channeling phenomena of He, Ne, Ar and Kr ions at energy (200-5000eV) in single-wall carbon nanotubes (SWCNTs) are investigated by molecular dynamics simulation with analytical potentials.The critical angles for the particles to be channeled in an SWCNT are analyzed.In the incident energy range of 200-5000 eV, it is found that the ion energy dependence of the critical angle obeys an improved Lindhard equation which is closely related to the ratio of nuclear charge number to atomic mass Z/M.The critical angle for different types of ions channeling in SWCNTs is determined by both the atomic nuclear charge and mass.%Channeling phenomena of He, Ne, Ar and Kr ions at energy (200-5000eV) in single-wall carbon nanotubes (SWCNTs) are investigated by molecular dynamics simulation with analytical potentials. The critical angles for the particles to be channeled in an SWCNT are analyzed. In the incident energy range of 200-5000eV, it is found that the ion energy dependence of the critical angle obeys an improved Lindhard equation which is closely related to the ratio of nuclear charge number to atomic mass Z/M. The critical angle for different types of ions channeling in SWCNTs is determined by both the atomic nuclear charge and mass.

  3. Pharmacological targeting of ion channels for cancer therapy: In vivo evidences.

    Leanza, Luigi; Managò, Antonella; Zoratti, Mario; Gulbins, Erich; Szabo, Ildiko

    2016-06-01

    Since the discovery of the participation of various ion channels in the regulation of cell proliferation and programmed cell death two decades ago, the field exploring ion channel function in relation to cancer has undergone rapid development. Although the mechanisms accounting for the impact of ion channel modulators on cancer growth have not been fully clarified in all cases, numerous in vivo experiments targeting diverse ion channels in various cancer models illustrate the great potentiality of this approach and promote ion channels to the class of oncological targets. In the present review we give an updated overview of the field and critically discuss the promising results obtained in pre-clinical models using specific pharmacological modulators of calcium, sodium, potassium and anion-permeable ion channels, whose expression is often altered in tumor cells and tissues. The most, especially critical issues are specificity of action and side-effects. Interestingly, some of the most potent drugs are natural products, and several of the active compounds are already used in the clinic for other purposes. In these latter cases involving drug repositioning we may expect a faster progression from preclinical to clinical studies. This article is part of a Special Issue entitled: Calcium and Cell Fate. Guest Editors: Jacques Haiech, Claus Heizmann, Joachim Krebs, Thierry Capiod and Olivier Mignen. PMID:26658642

  4. Optimal positron-beam excited plasma wakefields in Hollow and Ion-Wake channels

    Sahai, Aakash A

    2015-01-01

    A positron-beam interacting with the plasma electrons drives radial suck-in, in contrast to an electron-beam driven blow-out in the over-dense regime, $n_b>n_0$. In a homogeneous plasma, the electrons are radially sucked-in from all the different radii. The electrons collapsing from different radii do not simultaneously compress on-axis driving weak fields. A hollow-channel allows electrons from its channel-radius to collapse simultaneously exciting coherent fields. We analyze the optimal channel radius. Additionally, the low ion density in the hollow allows a larger region with focusing phase which we show is linearly focusing. We have shown the formation of an ion-wake channel behind a blow-out electron bubble-wake. Here we explore positron acceleration in the over-dense regime comparing an optimal hollow-plasma channel to the ion-wake channel. The condition for optimal hollow-channel radius is also compared. We also address the effects of a non-ideal ion-wake channel on positron-beam excited fields.

  5. Bioinformatic characterizations and prediction of K+ and Na+ ion channels effector toxins.

    2009-01-01

    Background K+ and Na+ channel toxins constitute a large set of polypeptides, which interact with their ion channel targets. These polypeptides are classified in two different structural groups. Recently a new structural group called birtoxin-like appeared to contain both types of toxins has been described. We hypothesized that peptides of this group may contain two conserved structural motifs in K+ and/or Na+ channels scorpion toxins, allowing these birtoxin-like peptides to be active on K+ a...

  6. Stochastic differential equation models for ion channel noise in Hodgkin-Huxley neurons.

    Goldwyn, Joshua H; Imennov, Nikita S; Famulare, Michael; Shea-Brown, Eric

    2011-04-01

    The random transitions of ion channels between conducting and nonconducting states generate a source of internal fluctuations in a neuron, known as channel noise. The standard method for modeling the states of ion channels nonlinearly couples continuous-time Markov chains to a differential equation for voltage. Beginning with the work of R. F. Fox and Y.-N. Lu [Phys. Rev. E 49, 3421 (1994)], there have been attempts to generate simpler models that use stochastic differential equation (SDEs) to approximate the stochastic spiking activity produced by Markov chain models. Recent numerical investigations, however, have raised doubts that SDE models can capture the stochastic dynamics of Markov chain models.We analyze three SDE models that have been proposed as approximations to the Markov chain model: one that describes the states of the ion channels and two that describe the states of the ion channel subunits. We show that the former channel-based approach can capture the distribution of channel noise and its effects on spiking in a Hodgkin-Huxley neuron model to a degree not previously demonstrated, but the latter two subunit-based approaches cannot. Our analysis provides intuitive and mathematical explanations for why this is the case. The temporal correlation in the channel noise is determined by the combinatorics of bundling subunits into channels, but the subunit-based approaches do not correctly account for this structure. Our study confirms and elucidates the findings of previous numerical investigations of subunit-based SDE models. Moreover, it presents evidence that Markov chain models of the nonlinear, stochastic dynamics of neural membranes can be accurately approximated by SDEs. This finding opens a door to future modeling work using SDE techniques to further illuminate the effects of ion channel fluctuations on electrically active cells. PMID:21599202

  7. RBS/channelling study of Er+ ion-implanted lithium niobate structure after an annealing procedure

    Macková, Anna; Malinský, Petr; Švecová, B.; Nekvindová, P.; Grotzschel, R.

    Cambridge: IOP, Institute of physics, 2009. [19th International conference on Ion beam analysis . 07.09.2009-11.09.2009, Cambridge] R&D Projects: GA MŠk(CZ) LC06041 Institutional research plan: CEZ:AV0Z10480505 Keywords : Lithium niobate * Erbium * Ion implantation * RBS/channelling Subject RIV: BG - Nuclear, Atomic and Molecular Physics, Colliders

  8. Toxic β-Amyloid (Aβ) Alzheimer's Ion Channels: From Structure to Function and Design

    Nussinov, Ruth

    2012-02-01

    Full-length amyloid beta peptides (Aβ1-40/42) form neuritic amyloid plaques in Alzheimer's disease (AD) patients and are implicated in AD pathology. Recent biophysical and cell biological studies suggest a direct mechanism of amyloid beta toxicity -- ion channel mediated loss of calcium homeostasis. Truncated amyloid beta fragments (Aβ11-42 and Aβ17-42), commonly termed as non-amyloidogenic are also found in amyloid plaques of Alzheimer's disease (AD) and in the preamyloid lesions of Down's syndrome (DS), a model system for early onset AD study. Very little is known about the structure and activity of these smaller peptides although they could be key AD and DS pathological agents. Using complementary techniques of explicit solvent molecular dynamics (MD) simulations, atomic force microscopy (AFM), channel conductance measurements, cell calcium uptake assays, neurite degeneration and cell death assays, we have shown that non-amyloidogenic Aβ9-42 and Aβ17-42 peptides form ion channels with loosely attached subunits and elicit single channel conductances. The subunits appear mobile suggesting insertion of small oligomers, followed by dynamic channel assembly and dissociation. These channels allow calcium uptake in APP-deficient cells and cause neurite degeneration in human cortical neurons. Channel conductance, calcium uptake and neurite degeneration are selectively inhibited by zinc, a blocker of amyloid ion channel activity. Thus truncated Aβ fragments could account for undefined roles played by full length Aβs and provide a novel mechanism of AD and DS pathology. The emerging picture from our large-scale simulations is that toxic ion channels formed by β-sheets are highly polymorphic, and spontaneously break into loosely interacting dynamic units (though still maintaining ion channel structures as imaged with AFM), that associate and dissociate leading to toxic ion flux. This sharply contrasts intact conventional gated ion channels that consist of tightly

  9. Stochastic pumping of ions based on colored noise in bacterial channels under acidic stress.

    López, M Lidón; Queralt-Martín, María; Alcaraz, Antonio

    2016-07-21

    Fluctuation-driven ion transport can be obtained in bacterial channels with the aid of different types of colored noise including the biologically relevant Lorentzian one. Using the electrochemical rectification of the channel current as a ratchet mechanism we observe transport of ions up to their concentration gradient under conditions similar to that met in vivo, namely moderate pH gradients and asymmetrically charged lipid membranes. We find that depending on the direction of the concentration gradient the channel can pump either cations or anions from the diluted side to the concentrated one. We discuss the possible relevance of this phenomenon for the pH homeostasis of bacterial cells. PMID:27349445

  10. Charge Fluctuations and Boundary Conditions of Biological Ion Channels: Effect on the Ionic Transition Rate

    Tindjong, R.; Luchinsky, D. G.; McClintock, P. V. E.; Kaufman, I.; Eisenberg, R. S.

    2009-04-01

    A self-consistent solution is derived for the Poisson-Nernst-Planck (PNP) equation, valid both inside a biological ion channel and in the adjacent bulk fluid. An iterative procedure is used to match the two solutions together at the channel mouth. Charge fluctuations at the mouth are modeled as shot noise flipping the height of the potential barrier at the selectivity site. The resultant estimates of the conductivity of the ion channel are in good agreement with Gramicidin experimental measurements and they reproduce the observed current saturation with increasing concentration.