Orientation determination of interfacial β-sheet structures in situ

Journal of Physical Chemistry B

Volumn 114, Issue 25, 2010, Pages 8291-8300

  Nguyen, Khoi Tan ^a,b   King, John Thomas ^a   Chen, Zhan ^a  

^a UNIVERSITY OF MICHIGAN   (United States)

^b INTERNATIONAL UNIVERSITY   (Viet Nam)

Author keywords

[No Author keywords available]

Indexed keywords

AMIDES; AMINO ACIDS; BIOCHEMISTRY; BIOCOMPATIBILITY; BIOLOGICAL MEMBRANES; FOURIER ANALYSIS; FOURIER TRANSFORMS; LIPID BILAYERS; ORGANIC ACIDS; PEPTIDES; PHYSICAL CHEMISTRY; SPECTROSCOPIC ANALYSIS;

AMIDE I; AMINO ACID PEPTIDES; ATR FTIR; ATTENUATED TOTAL REFLECTANCE; BIOLOGICAL APPLICATIONS; BIOLOGICAL MOLECULE; BIOSENSING; COMPLEX MOLECULES; FOURIER TRANSFORMATIONS; HELICAL STRUCTURES; IN-SITU; INFRARED SPECTROSCOPIC; MEMBRANE PROTEINS; OPTICAL SPECTROSCOPY; POLYMER SURFACES; SECONDARY STRUCTURES; SHEET COMPONENTS; SHEET STRUCTURE; SPECTROSCOPIC STUDIES; STRUCTURAL BIOLOGY; STRUCTURAL INFORMATION; SUM FREQUENCY GENERATION; TACHYPLESIN; TILT ANGLE; TWIST ANGLES;

PAPER SHEETING;

ANTIINFECTIVE AGENT; ANTIMICROBIAL CATIONIC PEPTIDE; CYCLOPEPTIDE; DNA BINDING PROTEIN; LIPID BILAYER; POLYMER; TACHYPLESIN PEPTIDE, TACHYPLEUS TRIDENTATUS;

ALGORITHM; AMINO ACID SEQUENCE; CHEMISTRY; INFRARED SPECTROSCOPY; LIPID BILAYER; METABOLISM; MOLECULAR GENETICS; PROTEIN SECONDARY STRUCTURE; RAMAN SPECTROMETRY;

ALGORITHMS; AMINO ACID SEQUENCE; ANTI-INFECTIVE AGENTS; ANTIMICROBIAL CATIONIC PEPTIDES; DNA-BINDING PROTEINS; LIPID BILAYERS; MOLECULAR SEQUENCE DATA; PEPTIDES, CYCLIC; POLYMERS; PROTEIN STRUCTURE, SECONDARY; SPECTROSCOPY, FOURIER TRANSFORM INFRARED; SPECTRUM ANALYSIS, RAMAN;

EID: 77953965202     PISSN: 15206106     EISSN: 15205207     Source Type: Journal    
DOI: 10.1021/jp102343h     Document Type: Article

References (111)

1. Nguyen, K. T.; Le Clair, S. V.; Ye, S.; Chen, Z. J. Phys. Chem. B 2009, 113, 12169-12180
2. Chen, X.; Wang, J.; Boughton, A. P.; Kristalyn, C. B.; Chen, Z. J. Am. Chem. Soc. 2007, 129, 1420-1427
3. Wang, J.; Lee, S. H.; Chen, Z. J. Phys. Chem. B 2008, 112, 2281-2290
4. Pauling, L.; Corey, R. B. Proc. Natl. Acad. Sci. U.S.A. 1953, 39, 253-256
5. Nabedryk, E.; Garavito, R. M.; Breton, J. Biophys. J. 1988, 53, 671-676
6. Pan, K. -M.; Baldwin, M.; Nguyen, J.; Gasset, M.; Serban, A.; Groth, D.; Melhorn, I.; Huang, Z.; Fletterick, R. J.; Cohen, F. E.; Prusiner, S. B. Proc. Natl. Acad. Sci. U.S.A. 1993, 90, 10962-10966
7. Sugiyama, Y.; Inoue, Y.; Muneyuki, E.; Haneda, H.; Fujimoto, M. J. Electron. Micros. 2006, 55, 143-149
8. Hardy, J.; Selkoe, D. J. Science 2002, 297, 353-356
9. Axelsen, P. H.; Citra, M. J. Prog. Biophys. Mol. Biol. 1996, 66, 227-253
10. Bechinger, B.; Ruysschaert, J. M.; Goormaghtigh, E. Biophys. J. 1999, 76, 552-563
11. Bradbury, E. M.; Brown, L.; Downie, A. R.; Elliot, A.; Fraser, R. D. B.; Hanby, W. E. J. Mol. Biol. 1962, 5, 230-247
12. Fraser, R. D. B. J. Chem. Phys. 1953, 21, 1511-1515
13. Higgs, P. W. Proc. R. Soc. London, Ser. A 1953, 220, 472-485
14. Lee, S. H.; Krimm, S. Biopolymers 1998, 46, 283-317
15. Marsh, D.; Müller, M.; Schmitt, F. J. Biophys. J. 2000, 78, 2499-2510
16. Marsh, D. Methods Enzymol. 1999, 294, 59-92
17. Marsh, D. Biophys. J. 1998, 75, 354-358
18. Miyazawa, T.; Blout, E. R. J. Am. Chem. Soc. 1961, 83, 712-719
19. Reisdorf, W., Jr.; Krimm, S. Biophys. J. 1995, 69, 271-273
20. Tamm, L. K.; Tatulian, S. A. Q. Rev. Biophys. 1997, 30, 365-429
21. Tsuboi, M. J. Polym. Sci. 1962, 59, 139-153
22. Chen, L. X.; Strauss, H. L.; Snyder, R. G. Biophys. J. 1993, 64, 1533-1541
23. Dwivedi, A. M.; Krimm, S. Biopolymers 1984, 23, 2025-2065
24. Fanconi, B.; Tomlinson, B.; Nafie, L. A.; Small, W.; Peticolas, W. L. J. Chem. Phys. 1969, 51, 3993-4005
25. Fanconi, B. Biopolymers 1973, 12, 2759-2776
26. Koenig, J. L.; Sutton, P. L. Biopolymers 1969, 8, 167-171
27. Lee, S. -H.; Krimm, S. J. Raman Spectrosc. 1998, 29, 73-80
28. Overman, S. A.; Tsuboi, M.; Thomas, G. J., Jr. J. Mol. Biol. 1996, 259, 331-336
29. Tsuboi, M.; Benevides, J. M.; Bondre, P.; Thomas, G. J., Jr. Biochemistry 2005, 44, 3091-3100
30. Tsuboi, M.; Ikeda, T.; Ueda, T. J. Raman Spectrosc. 1991, 22, 619-626
31. Wilser, W. T.; Fitchen, D. B. J. Chem. Phys. 1975, 62, 720-724
32. Axelsen, P. H.; Kaufman, B. K.; McElhaney, R. N.; Lewis, R. N. Biophys. J. 1995, 69, 2770-2781
33. Bechinger, B. Biochim. Biophys. Atca 1999, 1462, 157-183
34. Bechinger, B.; Aisenbrey, C.; Bertani, P. Biochim. Biophys. Atca 2004, 1666, 190-204
35. Durr, U. H. N.; Yamamoto, K.; Ramamoorthy, A. J. Am. Chem. Soc. 2007, 129, 6670-6671
36. Dvinskikh, S. V.; Durr, U. H. N.; Yamamoto, K.; Ramamoorthy, A. J. Am. Chem. Soc. 2007, 129, 794-802
37. Fernandez, C.; Adeishvili, K.; Wuthrich, K. Proc. Nat. Acad. Sci. U.S.A. 1998, 98, 2358-2363
38. Lee, D.; Walter, K. F. A.; Bruckner, A. K.; Hilty, C.; Becker, S.; Griesinger, C. J. Am. Chem. Soc. 2008, 130, 13822-13823
39. Lindblom, G.; Grobner, G. Curr. Opin. Colloid Interface Sci. 2006, 11, 24-29
40. Naito, A.; Kawamura, I. Biochim. Biophys. Acta 2007, 1768, 1900-1912
41. Andronesi, O. C.; Becker, S.; Seidel, K.; Heise, H.; Young, H. S.; Baldus, M. J. Am. Chem. Soc. 2005, 127, 12965-12974
42. Hwang, P. M.; Choy, W. Y.; Lo, E. I.; Chen, L.; Forman-Kay, J. D.; Raetz, C. R.; Privé, G. G.; Bishop, R. E.; Kay, L. E. Proc. Natl. Acad. Sci. U.S.A. 2002, 99, 13560-13565
43. Kovacs, F.; Quine, J.; Cross, T. A. Proc. Natl. Acad. Sci. U.S.A. 1999, 96, 7910-7915
44. Shen, Y. R. The Principles of Nonlinear Optics; John Wiley & Sons: New York, 1984.
45. Shen, Y. R.; Ostroverkhov, V. Chem. Rev. 2006, 106, 1140-1154
46. Bain, C. D. J. Chem. Soc., Faraday Trans. 1995, 1281-1296
47. Eisenthal, K. B. Chem. Rev. 1996, 96, 1343-1360
48. Gracias, D. H.; Chen, Z.; Shen, Y. R.; Somorjai, G. A. Acc. Chem. Res. 1999, 32, 930-940
49. Moore, F. G.; Richmond, G. L. Acc. Chem. Res. 2008, 41, 739-748
50. Gautam, K. S.; Dhinojwala, A. Phys. Rev. Lett. 2002, 88, 145501
51. Baldelli, S. Acc. Chem. Res. 2008, 41, 421-431
52. Anglin, T. C.; Conboy, J. C. Biophys. J. 2008, 95, 186-193
53. Gopalakrishnan, S.; Liu, D. F.; Allen, H. C.; Kuo, M.; Shultz, M. J. Chem. Rev. 2006, 106, 1155-1175
54. Perry, A.; Neipert, C.; Space, B.; Moore, P. B. Chem Rev 2006, 106, 1234-1258
55. Li, Q.; Hua, R.; Cheah, I. J.; Chou, K. C. J. Phys. Chem. B 2008, 112, 694-697
56. Stiopkin, I. V.; Jayathilake, H. D.; Bordenyuk, A. N.; Benderskii, A. V. J. Am. Chem. Soc. 2008, 130, 2271-2275
57. Voges, A. B.; Stokes, G. Y.; Gibbs-Davis, J. M.; Lettan, R. B.; Bertin, P. A.; Pike, R. C.; Nguyen, S. T.; Scheidt, K. A.; Geiger, F. M. J. Phys. Chem. C 2007, 111, 1567-1578
58. Dreesen, L.; Sartenaer, Y.; Humbert, C.; Mani, A. A.; Methivier, C.; Pradier, C. M.; Thiry, P. A.; Peremans, A. Chem. Phys. Chem. 2004, 5, 1719-1725
59. Dreesen, L.; Humbert, C.; Sartenaer, Y.; Caudano, Y.; Volcke, C.; Mani, A. A.; Peremans, A.; Thiry, P. A.; Hanique, S.; Frere, J. M. Langmuir 2004, 20, 7201-7207
60. Rupprechter, G.; Weilach, C. J. Phys.: Condens. Matter 2008, 20, 184019
61. Fourkas, J. T.; Walker, R. A.; Can, S. Z.; Gershgoren, E. J. Phys. Chem. C 2007, 111, 8902-8915
62. Holman, J.; Ye, S.; Neivandt, D. J.; Davies, P. B. J. Am. Chem. Soc. 2004, 126, 14322-14323
63. Iwahashi, T.; Miyamae, T.; Kanai, K.; Seki, K.; Kim, D.; Ouchi, Y. J. Phys. Chem. B 2008, 112, 11936-11941
64. Ma, G.; Allen, H. C. Langmuir 2007, 23, 589-597
65. Chen, X.; Wang, J.; Kristalyn, C. B.; Chen, Z. Biophys. J. 2007, 93, 866-875
66. Chen, X.; Chen, Z. Biochim. Biophys. Acta 2006, 1758, 1257-1273
67. Chen, X.; Clarke, M. L.; Wang, J.; Chen, Z. Int. J. Mod. Phys. B 2005, 19, 691-713
68. Clarke, M. L.; Wang, J.; Chen, Z. J. Phys. Chem. B 2005, 109, 22027-22035
69. Evans-Nguyen, K. M.; Fuierer, R. R.; Fitchett, B. D.; Tolles, L. R.; Conboy, J. C.; Schoenfisch, M. H. Langmuir 2006, 22, 5115-5121
70. Kim, J.; Cremer, P. S. Chem. Phys. Chem. 2001, 2, 543-546
71. Kim, J.; Somorjai, G. A. J. Am. Chem. Soc. 2003, 125, 3150-3158
72. Kim, G.; Gurua, M. C.; Lim, S. M.; Cremer, P. S. J. Phys. Chem. B 2003, 107, 1403-1409
73. Kim, G.; Gurau, M. C.; Kim, J.; Cremer, P. S. Langmuir 2002, 18, 2807-2811
74. Knoesen, A.; Pakalnis, S.; Wang, M.; Wise, W. D.; Lee, N.; Frank, C. W. IEEE J. Sel. Top. Quantum Electron. 2004, 10, 1154-1163
75. Mermut, O.; Phillips, D. C.; York, R. L.; McCrea, K. R.; Ward, R. S.; Somorjia, G. A. J. Am. Chem. Soc. 2006, 128, 3598-3607
76. Rocha-Mendoza, I.; Yankelevich, D. R.; Wang, M.; Reiser, K. M.; Frank, C. W.; Knoesen, A. Biophys. J. 2007, 93, 4433-4444
77. Weidner, T.; Breen, N. F.; Drobny, G. P.; Castner, D. G. J. Phys. Chem. B 2009, 113, 15423-15426
78. Wang, J.; Even, M. A.; Chen, X.; Schmaier, A. H.; Waite, J. H.; Chen, Z. J. Am. Chem. Soc. 2003, 125, 9914-9915
79. Wang, J.; Buck, S. M.; Chen, Z. Analyst 2003, 128, 773-778
80. Wang, J.; Clarke, M. L.; Zhang, Y. B.; Chen, X.; Chen, Z. Langmuir 2003, 19, 7862-7866
81. Wang, J.; Chen, X.; Clarke, M. L.; Chen, Z. Proc. Natl. Acad. Sci. U.S.A. 2005, 102, 4978-4983
82. Wang, J.; Chen, X.; Clarke, M. L.; Chen, Z. J. Phys. Chem. B 2006, 110, 5017-5024
83. York, R. L.; Holinga, G. J.; Guyer, D. R.; McCrea, K. R.; Ward, R. S.; Somorjai, G. A. Appl. Spectrosc. 2008, 62, 937-1047
84. Chen, X.; Wang, J.; Sniadecki, J. J.; Even, M. A.; Chen, Z. Langmuir 2005, 21, 2262-2264
85. Chen, X.; Boughton, A. P.; Tesmer, J. J. G.; Chen, Z. J. Am. Chem. Soc. 2007, 129, 12658-12659
86. Chen, X.; Wang, J.; Paszti, Z.; Wang, F.; Schrauben, J. N.; Tarabara, V. V.; Schmaier, A. H.; Chen, Z. Anal. Bioanal. Chem. 2007, 388, 65-72
87. Wang, J.; Chen, C.; Buck, S. M.; Chen, Z. J. Phys. Chem. B 2001, 105, 12118-12125
88. Moad, A. J.; Simpson, G. J. J. Phys. Chem. A 2005, 109, 1316-1323
89. Moad, A. J.; Simpson, G. J. J. Phys. Chem. B 2004, 108, 3548-3562
90. Suzuki, E. Spectrochim. Acta, Part A 1967, 23, 2303-2308
91. Fraser, R. D. B.; Suzuki, E. Spectrochim. Acta, Part A 1970, 26, 423-426
92. Marsh, D. Biophys. J. 1997, 72, 2710-2716
93. Miyazawa, T. J. Chem. Phys. 1960, 32, 1647-1652
94. Tsuboi, M.; Kaneuchi, F.; Ikeda, T.; Akahane, F. Can. J. Chem. 1991, 69, 1752-1757
95. Tsuboi, M.; Kubo, Y.; Akahane, K.; Benevides, J. M.; Thomas, G. J., Jr. J. Raman Spectrosc. 2006, 37, 240-247
96. Krimm, S.; Abe, Y. Proc. Natl. Acad. Sci. U.S.A. 1972, 69, 2788-2792
97. Rousseau, M. E.; Lefevre, T.; Beaulieu, L.; Asakura, T.; Pezolet, M. Biomacromolecules 2004, 5, 2247-2257
98. Chirgadze, Y. N.; Nevskaya, N. A. Biopolymers 1976, 15, 607-625
99. Choi, J.-H.; Hahn, S.; Cho, M. Biopolymers 2006, 83, 519-536
100. Belkin, M. A.; Shen, Y. R. Phys. Rev. Lett. 2003, 91, 213907(1)-213907(4)
101. Haupert, L. M.; Simpson, G. J. Annu. Rev. Phys. Chem. 2009, 60, 345-365
102. Oh-e, M.; Yokoyama, H.; Yorozuya, S.; Akagi, K.; Belkin, M. A.; Shen, Y. R. Phys. Rev. Lett. 2004, 93, 267402(1)-267402(4)
103. Simpson, G. J. ChemPhysChem 2004, 5, 1301-1310
104. Belkin, M. A.; Kulakov, T. A.; Ernst, K. -H.; Yan, L.; Shen, Y. R. Phys. Rev. Lett. 2000, 85, 4474-4477
105. Heinz, T. F.; Tom, H. W. K.; Shen, Y. R. Phys. Rev. A 1983, 28, 1883-1885
106. Heinz, T. F. In Nonlinear Surface Electromagnetic Phenomena; North-Holland: New York, 1991; Vol. 29, p 352.
107. Mazely, T. L.; Hetherington, W. M., III. J. Chem. Phys. 1987, 86, 3640-3647
108. Simpson, G. J.; Perry, J. M.; Ashmore-Good, C. L. Phys. Rev. B 2002, 66, 65437(1)-65437(10)
109. Manella, C. A.; Forte, M.; Columbini, M. J. Bioenerg. Biomembr. 1992, 24, 7-19
110. Kawano, K.; Yoneya, T.; Miyata, T. J. Biol. Chem. 1990, 265, 15365-15367
111. Nakamura, T.; Furunaka, H.; Miyata, T. J. Biol. Chem. 1988, 263, 16709-16713