NMR analysis of cross strand aromatic interactions in an 8 residue hairpin and a 14 residue three stranded β-sheet peptide

Journal of Physical Chemistry B

Volumn 116, Issue 49, 2012, Pages 14207-14215

  Sonti, Rajesh ^a   Rai, Rajkishor ^a   Ragothama, Srinivasarao ^a   Balaram, Padmanabhan ^a  

^a INDIAN INSTITUTE OF SCIENCE   (India)

Author keywords

[No Author keywords available]

Indexed keywords

APOLAR SOLVENTS; AROMATIC INTERACTIONS; AROMATIC PROTONS; AROMATIC RINGS; CONFORMATIONAL CHANGE; DYNAMIC PROCESS; FOLDED CONFORMATION; HAIRPIN CONFORMATION; HSQC-TOCSY; MODEL PEPTIDES; NATURAL ABUNDANCE; NH GROUPS; NMR ANALYSIS; PHENYLALANINE RESIDUES; PROTON CHEMICAL SHIFTS; RING CURRENTS; SHEET FORMATION; SHEET STRUCTURE; SIDE-CHAINS; SOLVOPHOBIC EFFECTS; TEMPERATURE DEPENDENCE; TYPE II;

AMINO ACIDS; AROMATIZATION; CONFORMATIONS; HYDROGEN BONDS; PEPTIDES; PROTONS;

AROMATIC COMPOUNDS;

PEPTIDE; PHENYLALANINE;

ARTICLE; CHEMICAL STRUCTURE; CHEMISTRY; HYDROGEN BOND; NUCLEAR MAGNETIC RESONANCE; PROTEIN SECONDARY STRUCTURE;

HYDROGEN BONDING; MODELS, MOLECULAR; NUCLEAR MAGNETIC RESONANCE, BIOMOLECULAR; PEPTIDES; PHENYLALANINE; PROTEIN STRUCTURE, SECONDARY;

EID: 84871029355     PISSN: 15206106     EISSN: 15205207     Source Type: Journal    
DOI: 10.1021/jp3034769     Document Type: Article

References (63)

1. Waters, M. L. Curr. Opin. Chem. Biol. 2002, 6, 736-741
2. Cochran, A. G.; Skelton, N. J.; Starovasnik, M. A. Proc. Natl. Acad. Sci. U.S.A. 2001, 98, 5578-5583
3. Tatko, C. D.; Waters, M. L. J. Am. Chem. Soc. 2002, 124, 9372-9373
4. Butterfield, S. M.; Patel, P. R.; Waters, M. L. J. Am. Chem. Soc. 2002, 124, 9751-9755
5. Russell, S. J.; Cochran, A. G. J. Am. Chem. Soc. 2000, 122, 12600-12601
6. Nakamura, H. Q. Rev. Biophys. 1996, 29, 1-90
7. Meyer, E. A.; Castellano, R. K.; Diederich, F. Angew. Chem., Int. Ed. 2003, 42, 1210-1250
8. Salonen, L. M.; Ellermann, M.; Diederich, F. Angew. Chem., Int. Ed. 2011, 50, 4808-4842
9. Mahalakshmi, R.; Raghothama, S.; Balaram, P. J. Am. Chem. Soc. 2006, 128, 1125-1138
10. Venkatraman, J.; Shankaramma, S. C.; Balaram, P. Chem. Rev. 2001, 101, 3131-3152
11. Aravinda, S.; Shamala, N.; Roy, R.; Balaram, P. J. Chem. Sci. 2003, 115, 373-400
12. Gellman, S. H. Curr. Opin. Chem. Biol. 1998, 2, 717-725
13. Langenhan, J. M.; Gellman, S. H. Org. Lett. 2004, 6, 937-940
14. Santiveri, C. M.; Rico, M.; Jiménez, M. A.; Pastor, M. T.; Pérez-Payá, E. J. Pept. Res. 2003, 61, 177-188
15. Hilario, J.; Kubelka, J.; Syud, F. A.; Gellman, S. H.; Keiderling, T. A. Biopolymers 2002, 67, 233-236
16. Venkatraman, J.; Nagana Gowda, G. A.; Balaram, P. J. Am. Chem. Soc. 2002, 124, 4987-4994
17. Das, C.; Naganagowda, G. A.; Karle, I. L.; Balaram, P. Biopolymers 2001, 58, 335-346
18. Alba, E. D.; Rico, M.; Jiménez, M. A. Protein Sci. 1999, 8, 2234-2244
19. Ramírez-Alvarado, M.; Kortemme, T.; Blanco, F. J.; Serrano, L. Biorg. Med. Chem. 1999, 7, 93-103
20. Stanger, H. E.; Gellman, S. H. J. Am. Chem. Soc. 1998, 120, 4236-4237
21. Haque, T. S.; Little, J. C.; Gellman, S. H. J. Am. Chem. Soc. 1994, 116, 4105-4106
22. Karle, I. L.; Awasthi, S. K.; Balaram, P. Proc. Natl. Acad. Sci. U.S.A. 1996, 93, 8189-8193
23. Harini, V. V.; Aravinda, S.; Rai, R.; Shamala, N.; Balaram, P. Chem.-Eur. J. 2005, 11, 3609-3620
24. Aravinda, S.; Harini, V. V.; Shamala, N.; Das, C.; Balaram, P. Biochemistry 2004, 43, 1832-1846
25. Aravinda, S.; Shamala, N.; Rajkishore, R.; Gopi, H. N.; Balaram, P. Angew. Chem., Int. Ed. 2002, 41, 3863-3865
26. Karle, I. L.; Das, C.; Balaram, P. Proc. Natl. Acad. Sci. U.S.A. 2000, 97, 3034-3037
27. Kantharaju; Raghothama, S.; Raghavender, U. S.; Aravinda, S.; Shamala, N.; Balaram, P. Biopolymers 2009, 92, 405-416
28. Rai, R.; Raghothama, S.; Balaram, P. J. Am. Chem. Soc. 2006, 128, 2675-2681
29. Nair, C. M.; Vijayan, M.; Venkatachalapathi, Y. V.; Balaram, P. J. Chem. Soc., Chem. Commun. 1979, 1183-1184
30. Robinson, J. A. Acc. Chem. Res. 2008, 41, 1278-1288
31. Aravinda, S.; Raghavender, U. S.; Rajkishore, R.; Harini, V. V.; Shamala, N.; Balaram, P. Submitted for publication.
32. Das, C.; Balaram, P.; Raghothama, S. Chem. Commun. 1999, 967-968
33. Das, C.; Raghothama, S.; Balaram, P. J. Am. Chem. Soc. 1998, 120, 5812-5813
34. Rajagopal, A.; Aravinda, S.; Raghothama, S.; Shamala, N.; Balaram, P. Biopolymers 2012, 98, 185-194
35. Raghothama, S.; Chaddha, M.; Balaram, P. J. Phys. Chem. 1996, 100, 19666-19671
36. Bax, A.; Freeman, R. J. Magn. Reson. 1981, 44, 542-561
37. Braunschweiler, L.; Ernst, R. R. J. Magn. Reson. 1983, 53, 521-528
38. Bothner-By, A. A.; Stephens, R. L.; Lee, J.; Warren, C. D.; Jeanloz, R. W. J. Am. Chem. Soc. 1984, 106, 811-813
39. Kay, L.; Keifer, P.; Saarinen, T. J. Am. Chem. Soc. 1992, 114, 10663-10665
40. Otting, G.; Wüthrich, K. J. Magn. Reson. 1988, 76, 569-574
41. Bartels, C.; Xia, T.-h.; Billeter, M.; Güntert, P.; Wüthrich, K. J. Biomol. NMR 1995, 6, 1-10
42. Herrmann, T.; Güntert, P.; Wüthrich, K. J. Mol. Biol. 2002, 319, 209-227
43. Güntert, P.; Mumenthaler, C.; Wüthrich, K. J. Mol. Biol. 1997, 273, 283-298
44. The PyMOL Molecular Graphics System, Version 1.2r1, Schrödinger, LLC.
45. Blundell, T.; Slngh, J.; Thornton, J.; Burley, S. K.; Petsko, G. A. Science 1986, 234, 1005
46. Burley, S. K.; Petsko, G. A. Science 1985, 229, 23-28
47. Hunter, C. A.; Singh, J.; Thornton, J. M. J. Mol. Biol. 1991, 218, 837-846
48. Tsuzuki, S.; Uchimaru, T.; Mikami, M.; Tanabe, K. Chem. Phys. Lett. 1996, 252, 206-210
49. Tsuzuki, S.; Honda, K.; Uchimaru, T.; Mikami, M.; Tanabe, K. J. Am. Chem. Soc. 2001, 124, 104-112
50. Hobza, P.; Selzle, H. L.; Schlag, E. W. J. Am. Chem. Soc. 1994, 116, 3500-3506
51. Chipot, C.; Jaffe, R.; Maigret, B.; Pearlman, D. A.; Kollman, P. A. J. Am. Chem. Soc. 1996, 118, 11217-11224
52. Sinnokrot, M. O.; Valeev, E. F.; Sherrill, C. D. J. Am. Chem. Soc. 2002, 124, 10887-10893
53. Sun, S.; Bernstein, E. R. J. Phys. Chem. 1996, 100, 13348-13366
54. Hobza, P.; Selzle, H. L.; Schlag, E. W. J. Phys. Chem. 1996, 100, 18790-18794
55. Sinnokrot, M. O.; Sherrill, C. D. J. Phys. Chem. A 2006, 110, 10656-10668
56. Pauling, L. Proc. Natl. Acad. Sci. U.S.A. 1979, 76, 2293-2294
57. Wüthrich, K.; Wagner, G. FEBS Lett. 1975, 50, 265-268
58. Skalicky, J. J.; Mills, J. L.; Sharma, S.; Szyperski, T. J. Am. Chem. Soc. 2000, 123, 388-397
59. Sedov, I. A.; Stolov, M. A.; Solomonov, B. N. J. Phys. Org. Chem. 2011, 24, 1088-1094
60. Sjoeberg, M.; Silveston, R.; Kronberg, B. Langmuir 1993, 9, 973-979
61. Davidovic, M.; Mattea, C.; Qvist, J.; Halle, B. J. Am. Chem. Soc. 2008, 131, 1025-1036
62. Tobias, D. J.; Brooks Iii, C. L. J. Chem. Phys. 1990, 92, 2582-2592
63. Otting, G.; Liepinsh, E.; Wüthrich, K. Biochemistry 1993, 32, 3571-3582