Symmetry-constrained analysis of pulsed Double Electron-Electron Resonance (DEER) spectroscopy reveals the dynamic nature of the KcsA activation gate

Journal of the American Chemical Society

Volumn 134, Issue 39, 2012, Pages 16360-16369

  Dalmas, Olivier ^a   Hyde, H Clark ^a   Hulse, Raymond E ^a   Perozo, Eduardo ^a  

^a UNIVERSITY OF CHICAGO   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ACTIVATION GATE; C-TERMINAL DOMAINS; CONFIDENCE REGION; DISTANCE DETERMINATION; DISTANCE DISTRIBUTIONS; DOUBLE ELECTRON-ELECTRON RESONANCE; DYNAMIC NATURE; ECHO INTENSITY; ILL POSED PROBLEM; ION CHANNEL; OLIGOMERIC STATE; PENTAMERS; PROTEIN SYSTEM; RICE DISTRIBUTION; STANDARD MODEL; TETRAMERS; TIKHONOV REGULARIZATION;

OLIGOMERS; PROBLEM SOLVING;

ACTIVATION ANALYSIS;

BACTERIAL PROTEIN; PROTEIN CORA; PROTEIN KCSA; UNCLASSIFIED DRUG;

ARTICLE; CARBOXY TERMINAL SEQUENCE; CONFORMATION; DOUBLE ELECTRON ELECTRON RESONANCE SPECTROSCOPY; MOLECULAR DYNAMICS; PROTEIN DOMAIN; QUANTITATIVE ANALYSIS; SPECTROSCOPY; STREPTOMYCES LIVIDANS; THERMOTOGA MARITIMA;

BACTERIAL PROTEINS; ELECTRON SPIN RESONANCE SPECTROSCOPY; ION CHANNEL GATING; MODELS, MOLECULAR; POTASSIUM CHANNELS; PROTEIN MULTIMERIZATION; PROTEIN STRUCTURE, QUATERNARY; PROTEIN STRUCTURE, TERTIARY; REPRODUCIBILITY OF RESULTS; STREPTOMYCES LIVIDANS;

EID: 84867053372     PISSN: 00027863     EISSN: 15205126     Source Type: Journal    
DOI: 10.1021/ja3069038     Document Type: Article

References (48)

1. Perozo, E.; Cortes, D. M.; Sompornpisut, P.; Kloda, A.; Martinac, B. Nature 2002, 418, 942
2. Perozo, E.; Cuello, L. G.; Cortes, D. M.; Liu, Y. S.; Sompornpisut, P. Novartis Found. Symp. 2002, 245, 146
3. Claxton, D. P.; Quick, M.; Shi, L.; de Carvalho, F. D.; Weinstein, H.; Javitch, J. A.; Mchaourab, H. S. Nat. Struct. Mol. Biol. 2010, 17, 822
4. Smirnova, I.; Kasho, V.; Choe, J. Y.; Altenbach, C.; Hubbell, W. L.; Kaback, H. R. Proc. Natl. Acad. Sci. U.S.A. 2007, 104, 16504
5. Borbat, P. P.; Surendhran, K.; Bortolus, M.; Zou, P.; Freed, J. H.; Mchaourab, H. S. PLoS Biol. 2007, 5 e271
6. Jeschke, G.; Polyhach, Y. Phys. Chem. Chem. Phys. 2007, 9, 1895
7. Endeward, B.; Butterwick, J. A.; MacKinnon, R.; Prisner, T. F. J. Am. Chem. Soc. 2009, 131, 15246
8. Jeschke, G.; Sajid, M.; Schulte, M.; Godt, A. Phys. Chem. Chem. Phys. 2009, 11, 6580
9. Payandeh, J.; Scheuer, T.; Zheng, N.; Catterall, W. A. Nature 2011, 475, 353
10. Catterall, W. A. Cold Spring Harbor Perspect. Biol. 2011, 3 a003947
11. Doyle, D. A.; Morais Cabral, J.; Pfuetzner, R. A.; Kuo, A.; Gulbis, J. M.; Cohen, S. L.; Chait, B. T.; MacKinnon, R. Science 1998, 280, 69
12. Lunin, V. V.; Dobrovetsky, E.; Khutoreskaya, G.; Zhang, R.; Joachimiak, A.; Doyle, D. A.; Bochkarev, A.; Maguire, M. E.; Edwards, A. M.; Koth, C. M. Nature 2006, 440, 833
13. Chang, G.; Spencer, R. H.; Lee, A. T.; Barclay, M. T.; Rees, D. C. Science 1998, 282, 2220
14. Hilf, R. J.; Dutzler, R. Nature 2008, 452, 375
15. Advanced ESR Methods in Polymer Research Jeschke, G.; Schlick, S., Eds.; Wiley-Interscience: Hoboken, NJ, 2006.
16. Jeschke, G.; Chechik, V.; Ionita, P.; Godt, A.; Zimmermann, H.; Banham, J.; Timmel, C. R.; Hilger, D.; Jung, H. Appl. Magn. Reson. 2006, 30, 473
17. Tikhonov, A. N.; Arsenin, V. I. A. Solutions of Ill-Posed Problems; Winston: Washington, DC, 1977.
18. Hansen, P. C.; O'Leary, D. P. SIAM J. Sci. Comput. 1993, 14, 1487
19. Domingo Kohler, S.; Spitzbarth, M.; Diederichs, K.; Exner, T. E.; Drescher, M. J. Magn. Reson. 2011, 208, 167
20. Perozo, E.; Cortes, D. M.; Cuello, L. G. Science 1999, 285, 73
21. Blunck, R.; Cordero-Morales, J. F.; Cuello, L. G.; Perozo, E.; Bezanilla, F. J. Gen. Physiol. 2006, 128, 569
22. Baker, K. A.; Tzitzilonis, C.; Kwiatkowski, W.; Choe, S.; Riek, R. Nat. Struct. Mol. Biol. 2007, 14, 1089
23. Ader, C.; Schneider, R.; Hornig, S.; Velisetty, P.; Wilson, E. M.; Lange, A.; Giller, K.; Ohmert, I.; Martin-Eauclaire, M. F.; Trauner, D.; Becker, S.; Pongs, O.; Baldus, M. Nat. Struct. Mol. Biol. 2008, 15, 605
24. Cuello, L. G.; Jogini, V.; Cortes, D. M.; Perozo, E. Nature 2010, 466, 203
25. Uysal, S.; Cuello, L. G.; Cortes, D. M.; Koide, S.; Kossiakoff, A. A.; Perozo, E. Proc. Natl. Acad. Sci. U.S.A. 2011, 108, 11896
26. Dalmas, O.; Cuello, L. G.; Jogini, V.; Cortes, D. M.; Roux, B.; Perozo, E. Structure 2010, 18, 868
27. Perozo, E.; Cortes, D. M.; Cuello, L. G. Nat. Struct. Biol. 1998, 5, 459
28. Miller, K. S. Multidimensional Gaussian Distributions; Wiley: New York, 1964.
29. Jakeman, E.; Tough, R. J. A. J. Opt. Soc. Am. A 1987, 4, 1764
30. Kohler, D. S.; Spitzbarth, M.; Diederichs, K.; Exner, T. E.; Drescher, M. J. Magn. Reson. 2011, 208, 167
31. Eshaghi, S.; Niegowski, D.; Kohl, A.; Martinez Molina, D.; Lesley, S. A.; Nordlund, P. Science 2006, 313, 354
32. Polyhach, Y.; Bordignon, E.; Jeschke, G. Phys. Chem. Chem. Phys. 2011, 13, 2356
33. Fleissner, M. R.; Bridges, M. D.; Brooks, E. K.; Cascio, D.; Kálai, T.; Hideg, K.; Hubbell, W. L. Proc. Natl. Acad. Sci. U.S.A. 2011, 108, 16241
34. Jeschke, G.; Koch, A.; Jonas, U.; Godt, A. J. Magn. Reson. 2002, 155, 72
35. Jeschke, G.; Bender, A.; Paulsen, H.; Zimmermann, H.; Godt, A. J. Magn. Reson. 2004, 169, 1
36. Beale, E. M. L. J. R. Stat. Soc. B 1960, 22, 41
37. Seber, G. A. F.; Wild, C. J. Nonlinear Regression; Wiley: New York, 1989.
38. Straume, M.; Frasier-Cadoret, S.; Johnson, M. In Topics in Fluorescence Spectroscopy; Lakowicz, J., Ed.; Plenum Press, New York: 1991; p 177.
39. Zhou, Y.; Morais-Cabral, J. H.; Kaufman, A.; MacKinnon, R. Nature 2001, 414, 43
40. Morais-Cabral, J. H.; Zhou, Y.; MacKinnon, R. Nature 2001, 414, 37
41. Yuan, P.; Leonetti, M. D.; Hsiung, Y.; MacKinnon, R. Nature 2012, 481, 94
42. Wu, Y.; Yang, Y.; Ye, S.; Jiang, Y. Nature 2010, 466, 393
43. Iscla, I.; Wray, R.; Blount, P. Protein Sci. 2011, 20, 1638
44. Pau, V.; Zhu, Y.; Yuchi, Z.; Hoang, Q.; Yang, D. J. Biol. Chem. 2007, 282, 29163
45. Cortes, D. M.; Cuello, L. G.; Perozo, E. J. Gen. Physiol. 2001, 117, 165
46. Uysal, S.; Vasquez, V.; Tereshko, V.; Esaki, K.; Fellouse, F. A.; Sidhu, S. S.; Koide, S.; Perozo, E.; Kossiakoff, A. Proc. Natl. Acad. Sci. U.S.A. 2009, 106, 6644
47. Cuello, L. G.; Jogini, V.; Cortes, D. M.; Pan, A. C.; Gagnon, D. G.; Dalmas, O.; Cordero-Morales, J. F.; Chakrapani, S.; Roux, B.; Perozo, E. Nature 2010, 466, 272
48. Ader, C.; Schneider, R.; Hornig, S.; Velisetty, P.; Vardanyan, V.; Giller, K.; Ohmert, I.; Becker, S.; Pongs, O.; Baldus, M. EMBO J. 2009, 28, 2825