vpu Transmembrane peptide structure obtained by site-specific fourier transform infrared dichroism and global molecular dynamics searching

Biophysical Journal

Volumn 77, Issue 3, 1999, Pages 1594-1601

  Kukol, Andreas ^a   Arkin, Isaiah T ^a  

^a UNIVERSITY OF CAMBRIDGE   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

CARBON 13; OLIGOMER; SYNTHETIC PEPTIDE; VIRUS PROTEIN;

ARTICLE; FOURIER TRANSFORMATION; HUMAN IMMUNODEFICIENCY VIRUS 1; INFRARED SPECTROMETRY; MOLECULAR DYNAMICS; MOLECULAR MODEL; NONHUMAN; PEPTIDE ANALYSIS; PEPTIDE SYNTHESIS;

HUMAN IMMUNODEFICIENCY VIRUS; HUMAN IMMUNODEFICIENCY VIRUS 1;

EID: 0032819359     PISSN: 00063495     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0006-3495(99)77007-4     Document Type: Article

References (35)

1. Adams, P., I. Arkin, D. Engelman, and A. Brunger. 1995. Computational searching and mutagenesis suggests a structure for the pentameric transmembrane domain of phospholamban. Nature Struct Biol. 2:154-162.
2. Arkin, I., K. MacKenzie, and A. Brunger. 1997. Site-directed dichroism as a method for obtaining rotational and orientational constraints for oriented polymers. J. Am. Chem. Soc. 119:8973-8190.
3. Braiman, M., and K. Rothschild. 1988. Fourier transform infrared techniques for probing membrane protein structure. Annu. Rev. Biophys. Biophys. Chem. 17:541-570.
4. Brunger, A., P. Adams, G. Clore, W. Gros, R. Grosse-Kunstleve, J. Jiang, J. Kuszewski, M. Nilges, N. Pannu, R. Read, L. Rice, T. Simonson, and G. Warren. 1998,. Crystallography and NMR system: a new software suite for macromolecular structure determination. Acta Crystallogr. D Biol. Crystallogr. 54:905-921.
5. Byler, D., and H. Susi. 1986. Examination of the Secondary structure of proteins by deconvolved FTIR spectra. Biopolymers. 25:469-487.
6. Cladera, J., J. Torres, and E. Padros. 1996. Analysis of conformational changes in bacteriorhodopsin upon retinal removal. Biophys. J. 70: 2882-2887.
7. Coady, M., N. Daniel, E. Tiganos, B. Allain, J. Friborg, J.-Y. Lapointe, and E. Cohen. 1998. Effects of vpu expression on Xenopus oocyte membrane conductance. Virology. 244:39-49.
8. Cohen, E., E. Terwilliger, J. Sodroski, and W. Haseltine. 1988. Identification of a protein encoded by the vpu gene of HIV-1. Nature. 334: 532-534.
9. Ewart, G., T. Sutherland, P. Gage, and G. Cox. 1996. The Vpu protein of human immunodeficiency virus type 1 forms cation-selective ion channels. J. Virol. 70:7108-7115.
10. Friborg, J., A. Ladha, H. Gottlinger, W. Haseltine, and E. Cohen. 1995. Functional analysis of the phosphorylation sites on the human immunodeficiency virus type 1 Vpu protein. J. Acquir. Immune Defic. Syndr. 8:10-22.
11. Gonzales, M., and L. Carrasco. 1998. The human immunodeficiency virus type I Vpu protein enhances membrane permeability. Biochemistry. 37:13710-13719.
12. Gottlinger, H., T. Dorfman, E. Cohen, and W. Haseltine. 1993. Vpu protein of human immunodeficiency virus type 1 enhances the release of capsids produced by gag gene constructs of widely divergent retroviruses. Proc. Nail. Acad. Sci. USA. 90:7381-7385.
13. Holsinger, L., D. Nichani, L. Pinto, and R. Lamb. 1994. Influenza A virus M2 ion channel protein: a structure-function analysis. J. Virol. 68: 1551-1563.
14. Jorgensen, W., and J. Tirado-Rives. 1988. The OPLS potential function for proteins, energy minimization for crystals of cyclic peptides and crambin? J. Am. Chem. Soc. 110:1657-1666.
15. Kauppinen, J., D. Moffatt, H. Mantsch, and D. Cameron. 1982. Fourier self-deconvolution: a method for resolving intrinsically overlapped bands. Appl. Spectrosc. 35:271-276.
16. Klimkait, T., K. Strebel, M. Hoggan, M. Martin, and J. Orenstein. 1990. The human immunodeficiency virus type 1-specific protein vpu is required for efficient virus maturation and release. /. Virol. 64:621-629.
17. Kovacs, F., and T. Cross. 1997. Transmembrane four-helix bundle of Influenza A M2 protein channel: structural implications from helix tilt and orientation. Biophys. J. 73:2511-2517.
18. Kraulis, P. 1991. Molscript: a program to produce both detailed and schematic plots of protein structures. J. Appl. Crystallogr. 24:946-950.
19. Kukol, A., P. Adams, A. Brunger, and I. Arkin. 1999. Experimental based spatial refinement of membrane protein models: a structure for the Influenza A M2-H+ channel. J. Mol Biol. 286:951-962.
20. Kukol, A., and E. Neumann. 1998. Electrostatic determinants of the ion channel control of the nicotinic acetylcholine receptor of Torpedo califomica. Ear. Biophys. J. 27:618-625.
21. Lamb, R., and L. Pinto. 1997. Do vpu and vpr of human immunodeficiency virus type 1 and nb of Influenza b virus have ion channel activities in the viral life cycles? Virology. 229:1-11.
22. Maldarelli, F., R. Willey, and K. Strebel. 1993. Human immunodeficiency virus type 1 Vpu protein is an oligomeric type I integral membrane protein. J. Virol. 67:5056-5061.
23. Pauling, L., R. Corey, and H. Branson. 1951. The structure of proteins: two hydrogen-bonded helical configurations of the polypeptide chain. Proc. Nail. Acad. Sei. USA. 37:205-211.
24. Sansom, M. 1998. Models and simulations of ion channels and related membrane proteins. Curr. Opin. Struct. Biol. 8:237-244.
25. Sansom, M., L. Forrest, and R. Bull. 1998. Viral ion channels: molecular modeling and simulation. BioEssays. 20:1-10.
26. Schubert, U., S. Bour, A. Ferrer-Montiel, M. Montai, and F. Maldarelli. 1996a. The two biological activities of human immunodeficiency virus type 1 Vpu protein involve two separable structural domains. J. Virol. 70:809-819.
27. Schubert, U., A. Ferrer-Montiel, M. Oblatt-Montal, P. Henklein, K. Strebel, and M. Montai. 1996b. Identification of an ion channel activity of the Vpu transmembrane domain and its involvement in the regulation of virus release from HIV-1-infected cells. FEES Lett. 398:12-18.
28. Schubert, U., and K. Strebel. 1994. Differential activities of the human immunodeficiency virus type 1-encoded Vpu protein are regulated by phosphorylation and occur in different cellular compartments. J. Virol. 68:2260-2271.
29. Strebel, K., T. Klimkait, F. Maldarelli, and M. Martin. 1989. Molecular and biochemical analyses of human immunodeficiency virus type 1 vpu protein. J. Virol. 63:3784-3791.
30. Strebel, K., T. Klimkait, and M. Martin. 1988. A novel gene of HIV-1, vpu, and its 16-kilodalton product. Science. 241:1221-1223.
31. Tadesse, L., R. Nazarbaghi, and L. Walters. 1991. Isotopically enhanced infrared spectroscopy: a novel method for examining the secondary structure at specific sites in conformationally heterogenous peptides. J. Am. Chem. Soc. 113:7036-7037.
32. Torres, J., J. Sepulcre, and E. Padros. 1995. Conformational changes in bacteriorhodopsin associated with protein-protein interactions: a functional aIpha(I)-alpha(II) helix switch. Biochemistry. 34:16320-16326.
33. Tosteson, M., M. Caulfield, J. Levy, M. Rosenblatt, and D. Tosteson. 1988. The synthetic precursor specific region of pre-proparathyroid hormone forms ion channels in lipid bilayers. Biosci. Rep. 8:173-183.
34. Tsuboi, M. 1962. Infrared dichroism and molecular conformation of a-form poly-γ-benzyl-L-glutamate. J. Polym. Sei. 59:139-153.
35. Xiao Jian, Y., H. Gottlinger, W. Haseltine, and E. Cohen. 1992. Envelope glycoprotein and CD4 independence of vpu-facilitated human immunodeficiency virus type 1 capsid export. J. Virol. 66:5119-5126.