Ion transit pathways and gating in ClC chloride channels

Proteins: Structure, Function and Genetics

Volumn 57, Issue 2, 2004, Pages 414-421

  Yin, Jian ^a   Kuang, Zhifeng ^a   Mahankali, Uma ^a   Beck, Thomas L ^a  

^a UNIVERSITY OF CINCINNATI   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CHLORIDE CHANNEL; CHLORIDE ION; GLUTAMIC ACID; MONOMER; PROTON;

ALGORITHM; ARTICLE; BINDING SITE; CHANNEL GATING; ELECTRIC POTENTIAL; ELECTRICITY; ION TRANSPORT; MEMBRANE POTENTIAL; PH; PRIORITY JOURNAL; PROTEIN STRUCTURE;

AMINO ACID SUBSTITUTION; CELL MEMBRANE PERMEABILITY; CHLORIDE CHANNELS; CHLORIDES; ELECTROPHYSIOLOGY; ESCHERICHIA COLI K12; ESCHERICHIA COLI PROTEINS; GLUTAMIC ACID; GLUTAMINE; HYDROGEN-ION CONCENTRATION; ION CHANNEL GATING; MEMBRANE POTENTIALS; MUTATION; SOFTWARE;

BACTERIA (MICROORGANISMS);

EID: 4544302534     PISSN: 08873585     EISSN: None     Source Type: Journal    
DOI: 10.1002/prot.20208     Document Type: Article

References (48)

1. - channel. Am J Physiol 1998;275:C1113-C1123.
2. Estevez R, Jentsch TJ. CLC chloride channels: correlating structure with function. Curr Opin Struct Biol 2002;12:531-539.
3. Ashcroft FM. Ion channels and disease. New York: Academic Press; 2000.
4. Iyer R, Iverson TM, Accardi A, Miller C. A biological role for prokaryotic ClC chloride channels. Nature 2002;419:715-718.
5. Maduke M, Pheasant DJ, Miller C. High-level expression, functional reconstitution, and quaternary structure of a prokaryotic ClC-type chloride channel. J Gen Physiol 1999;114:713-722.
6. Accardi A, Kolmakova-Partensky L, Williams C, Miller C. Ionic currents mediated by a prokaryotic homologue of CLC Cl-channels. J Gen Physiol 2004;123:109-119.
7. - channels. Nature 2004;427:803-807.
8. Miller C, White MM. Dimeric structure of single chloride channels from torpedo electroplax. Proc Natl Acad Sci USA 1984;81:2772-2775.
9. Ludewig U, Pusch M, Jentsch TJ. Two physically distinct pores in the dimeric ClC-0 chloride channel. Nature 1996;383:340-343.
10. Pusch M, Ludewig U, Rehfeldt A, Jentsch TJ. Gating of the voltage-dependent chloride channel ClC-0 by the permeant anion. Nature 1995;373:527-530.
11. Dutzler R, Campbell EB, Cadene M, Chait BT, MacKinnon R. Nature 2002;415:287-294.
12. Chen MF, Chen TY. Side-chain charge effects and conductance determinants in the pore of ClC-0 chloride channels. J Gen Physiol 2003;122:133-145.
13. Dutzler R, Campbell EB, MacKinnon R. Gating the selectivity filter in ClC chloride channels. Science 2003;300:108-112.
14. - channel. J Gen Physiol 1996;108:237-250.
15. + of the muscle-type ClC chloride channels. J Gen Physiol 2001;118:23-32.
16. Chen TY. Coupling gating with ion permeation in ClC channels. Science STKE 2003; pe23.
17. Smart OS, Goodfellow JM, Wallace BA. The pore dimensions of gramicidin A. Biophys J 1993;65:2455-2460.
18. Kuang Z, Liu A, Beck TL. To be submitted.
19. Turano B, Pear M, Busath D. Gramicidin channel selectivity. Molecular mechanics calculations for formamidinium, guanidinium, and acetamidinium. Biophys J 1992;63:152-161.
20. Brooks BR, Bruccoleri B, Olafson D, States DJ, Swaminathan S, Karplus M. CHARMM: a program for macromolecular energy minimization and dynamics calculations. J Comput Chem 1983;4: 187-217.
21. Beck TL. Real-space mesh techniques in density functional theory. Rev Mod Phys 2000;72:1041-1080.
22. Frenkel D and Smit B. Understanding Molecular Simulation. New York: Academic Press; 1996.
23. Ranatunga KM, Shrivastava IH, Smith GR, Sansoin MSP. Side-chain ionization states in a potassium channel. Biophys J 2001;80: 1210-1219.
24. Biggin PC, Sansom MSP. Open-state models of a potassium channel. Biophys J 2002;83:1867-1876.
25. Mamonov AB, Coalson RD, Nitzan A, Kurnikova MG. The role of the dielectric barrier in narrow biological channels: a novel composite approach to modeling single-channel currents. Biophys J 2003;84:3646-3661.
26. Lin CW, Chen TY. Probing the pore of ClC-0 by substituted cysteine accessibility method using methane thiosulfonate reagents. J Gen Physiol 2003;122:147-159.
27. Lin CW, Chen TY. Cysteine modification of a putative pore residue in ClC-0. J Gen Physiol 2000;116:535-546.
28. Burykin A, Warshel A. What really prevents proton transport through aquaporin? Charge self-energy versus proton wire proposals. Biophys J 2003;85:3696-3706.
29. Schirmer T, Phale PS. Brownian dynamics simulation of ion flow through porin channels. J Molec Biol 1999;294:1159-1167.
30. Rychkov GY, Pusch M, St J Astill D, Robers ML, Jentsch TJ, Bretag AH. Concentration and pH dependence of skeletal muscle chloride channel ClC-1. J Physiol 1996;497:423-435.
31. 2+ and a carboxylate blocker with the rat ClC-1 chloride channel and its R304E mutant in the Sf-9 insect cell line. J Physiol 1997;501:355-362.
32. Honig, Nicholls A. Classical electrostatics in biology and chemistry. Science 1995;268:1144-1149.
33. + channel. Biophys J 2002;82:772-780.
34. a values of buried residues: analysis with continuum methods and role of water penetration. Biophys J 2002;82:3289-3304
35. a's of ionizable residues in proteins: semi-microscopic and microscopic approaches. J Phys Chem 1997;101:4458-4472.
36. a's of ionizable groups in proteins: atomic detail from a continuum electrostatic model. Biochem 1990;29:10219-10225.
37. a's of ionizable groups in proteins. J Phys Chem 1996;100:17373-17387.
38. a values in enzyme active sites. Protein Sci 2003;12:1894-1901.
39. Nonner W, Eisenberg B. Ion permeation and glutamate residues linked by Poisson-Nernst-Planck theory in L-type calcium channels. Biophys J 1998;75:1287-1305.
40. Madura JD, Briggs JM, Wade RC, Davis ME, Luty BA, Hin A, Antosiewicz J, Gilson, MK, Bagheri B, Scott LR, McCammon JA. Electrostatics and diffusion of molecules in solution: simulations with the university of Houston Brownian dynamics program. Comput Phys Commun 1995;91:57-95.
41. Traverso S, Elia L, Pusch M. Gating competence of constitutively open ClC-0 Mutants revealed by the interaction with a small organic inhibitor. J Gen Physiol 2003;122:295-306.
42. Accardi A, Pusch M. Conformational changes in the pore of ClC-0. J Gen Physiol 2003;122:277-293.
43. Moran O, Traverso S, Elia L, Pusch M. Molecular modeling of p-chlorophenoxyacetic acid binding to the ClC-0 channel. Biochem 2003;42:5176-5185.
44. Miller C. ClC channels: reading eukaryotic function through prokaryotic spectacles. J Gen Physiol 2003;122:129-131.
45. - pores: electrostatic effects of charged residues. Biophys J 2004;86:825-835
46. Cohen J, Schulten K. Mechanism of anionic conduction across ClC. Biophys J 2004;86:836-845.
47. Corry B, O'mara MO, Chung S-H. Conduction mechanisms of chloride ions in ClC-type channels. Biophys J 2004;86:846-860.
48. Humphrey W, Dalke A, Schulten K. VMD: visual molecular dynamics. J Molec Graphics 1996;14:33-38.