HIV-1 peptide vaccine candidates: Selecting constrained V3 peptides with highest affinity to antibody 447-52D

Biochemistry

Volumn 48, Issue 33, 2009, Pages 7867-7877

  Mester, Brenda ^a   Manor, Revital ^a   Mor, Amit ^a   Arshava, Boris ^b   Rosen, Osnat ^a   Ding, Fa Xiang ^b   Naider, Fred ^b   Anglister, Jacob ^a  

^a WEIZMANN INSTITUTE OF SCIENCE   (Israel)

^b CITY UNIVERSITY OF NEW YORK   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AFFINITY BINDING; ANTI-HIV; CYS RESIDUES; DISULFIDE BONDS; ENVELOPE GLYCOPROTEINS; HAIRPIN CONFORMATION; HUMAN IMMUNODEFICIENCY VIRUS TYPE-1; NEUTRALIZING ANTIBODIES;

AMINES; BIOCHEMISTRY; CONFORMATIONS; MICROORGANISMS; MONOCLONAL ANTIBODIES;

PEPTIDES;

GLYCOPROTEIN GP 120; HUMAN IMMUNODEFICIENCY VIRUS VACCINE; MONOCLONAL ANTIBODY; NEUTRALIZING ANTIBODY;

ARTICLE; BINDING AFFINITY; DISULFIDE BOND; HUMAN IMMUNODEFICIENCY VIRUS 1; NONHUMAN; PRIORITY JOURNAL; PROTEIN CONFORMATION; PROTEIN EXPRESSION; PROTEIN PURIFICATION; PROTEIN SYNTHESIS;

AIDS VACCINES; ANTIBODIES, MONOCLONAL; ANTIBODY AFFINITY; BINDING SITES, ANTIBODY; HIV ENVELOPE PROTEIN GP120; HIV-1; HUMANS; IMMUNOGLOBULIN FAB FRAGMENTS; IMMUNOGLOBULIN VARIABLE REGION; NEUTRALIZATION TESTS; PEPTIDE FRAGMENTS; PROTEIN BINDING; PROTEIN CONFORMATION; VACCINES, SUBUNIT;

HUMAN IMMUNODEFICIENCY VIRUS 1;

EID: 69049103280     PISSN: 00062960     EISSN: None     Source Type: Journal    
DOI: 10.1021/bi900146g     Document Type: Article

References (51)

1. Rusche, J. R., Javaherian, K., McDanal, C., Petro, J., Lynn, D. L., Grimaila, R., Langlois, A., Gallo, R. C., Arthur, L. O., and Fischinger, P. J.; et al. (1988) Antibodies that inhibit fusion of human immunodeficiency virus-infected cells bind a 24-amino acid sequence of the viral envelope, gp120. Proc. Natl. Acad. Sci. U.S.A. 85, 3198-3202.
2. Rosen, O., Chill, J., Sharon, M., Kessler, N., Mester, B., Zolla-Pazner, S., and Anglister, J. (2005) Induced fit in HIV-neutralizing antibody complexes: evidence for alternative conformations of the gp120 V3 loop and the molecular basis for broad neutralization. Biochemistry 44, 7250-7258.
3. Wu, L., Gerard, N. P., Wyatt, R., Choe, H., Parolin, C., Ruffing, N., Borsetti, A., Cardoso, A. A., Desjardin, E., Newman, W., Gerard, C., and Sodroski, J. (1996) CD4-induced interaction of primary HIV-1 gp120 glycoproteins with the chemokine receptor CCR-5. Nature 384, 179-183.
4. Trkola, A., Dragic, T., Arthos, J., Binley, J. M., Olson, W. C., Allaway, G. P., Cheng Mayer, C., Robinson, J., Maddon, P. J., and Moore, J. P. (1996) CD4-dependent, antibody-sensitive interactions between HIV-1 and its co-receptor CCR-5. Nature 384, 184-187.
5. Gorny, M. K., Conley, A. J., Karwowska, S., Buchbinder, A., Xu, J. Y., Emini, E. A., Koenig, S., and Zolla-Pazner, S. (1992) Neutralization of diverse human immunodeficiency virus type 1 variants by an anti-V3 human monoclonal antibody. J. Virol. 66, 7538-7542.
6. Gorny, M. K., Xu, J. Y., Karwowska, S., Buchbinder, A., and Zolla-Pazner, S. (1993) Repertoire of neutralizing human monoclonal antibodies specific for the V3 domain of HIV-1 gp120. J. Immunol. 150, 635-643.
7. Binley, J. M., Wrin, T., Korber, B., Zwick, M. B., Wang, M., Chappey, C., Stiegler, G., Kunert, R., Zolla-Pazner, S., Katinger, H., Petropoulos, C. J., and Burton, D. R. (2004) Comprehensive cross-clade neutralization analysis of a panel of anti-human immunodeficiency virus type 1 monoclonal antibodies. J. Virol. 78, 13232-13252.
8. Keele, B. F., Giorgi, E. E., Salazar-Gonzalez, J. F., Decker, J. M., Pham, K. T., Salazar, M. G., Sun, C., Grayson, T., Wang, S., Li, H., Wei, X., Jiang, C., Kirchherr, J. L., Gao, F., Anderson, J. A., Ping, L. H., Swanstrom, R., Tomaras, G. D., Blattner,W. A., Goepfert, P. A., Kilby, J. M., Saag, M. S., Delwart, E. L., Busch, M. P., Cohen, M. S., Montefiori, D. C., Haynes, B. F., Gaschen, B., Athreya, G. S., Lee, H. Y., Wood, N., Seoighe, C., Perelson, A. S., Bhattacharya, T., Korber, B. T., Hahn, B. H., and Shaw, G. M. (2008) Identification and characterization of transmitted and early founder virus envelopes in primary HIV-1 infection. Proc. Natl. Acad. Sci. U.S.A. 105, 7552-7557.
9. Wu, X., Sambor, A., Nason, M. C., Yang, Z. Y., Wu, L., Zolla-Pazner, S., Nabel, G. J., and Mascola, J. R. (2008) Soluble CD4 broadens neutralization of V3-directed monoclonal antibodies and guinea pig vaccine sera against HIV-1 subtype B and C reference viruses. Virology 380, 285-295.
10. Madani, N., Schon, A., Princiotto, A. M., Lalonde, J. M., Courter, J. R., Soeta, T., Ng, D., Wang, L., Brower, E. T., Xiang, S. H., Do Kwon, Y., Huang, C. C., Wyatt, R., Kwong, P. D., Freire, E., Smith, A. B.III, and Sodroski, J. (2008) Small-molecule CD4 mimics interact with a highly conserved pocket on HIV-1 gp120. Structure 16, 1689-1701.
11. Van Herrewege, Y., Morellato, L., Descours, A., Aerts, L., Michiels, J., Heyndrickx, L., Martin, L., and Vanham, G. (2008) CD4 mimetic miniproteins: potent anti-HIV compounds with promising activity as microbicides. J. Antimicrob. Chemother. 61, 818-826.
12. Kwong, P. D., Doyle, M. L., Casper, D. J., Cicala, C., Leavitt, S. A., Majeed, S., Steenbeke, T. D., Venturi, M., Chaiken, I., Fung, M., Katinger, H., Parren, P. W., Robinson, J., Van Ryk, D., Wang, L., Burton, D. R., Freire, E., Wyatt, R., Sodroski, J., Hendrickson, W. A., and Arthos, J. (2002) HIV-1 evades antibody-mediated neutralization through conformational masking of receptor-binding sites. Nature 420, 678-682.
13. Overbaugh, J., and Rudensey, L. M. (1992) Alterations in potential sites for glycosylation predominate during evolution of the simian immunodeficiency virus envelope gene in macaques. J. Virol. 66, 5937-5948.
14. Shan, M., Klasse, P. J., Banerjee, K., Dey, A. K., Iyer, S. P., Dionisio, R., Charles, D., Campbell-Gardener, L., Olson, W. C., Sanders, R. W., and Moore, J. P. (2007) HIV-1 gp120 mannoses induce immunosuppressive responses from dendritic cells. PLoS Pathog. 3, e169.
15. Wyatt, R., Kwong, P. D., Desjardins, E., Sweet, R. W., Robinson, J., Hendrickson, W. A., and Sodroski, J.G. (1998) The antigenic structure of the HIV gp120 envelope glycoprotein. Nature 393, 705-711.
16. Chen, B., Vogan, E. M., Gong, H., Skehel, J. J., Wiley, D. C., and Harrison, S. C. (2005) Structure of an unliganded simian immunodeficiency virus gp120 core. Nature 433, 834-841.
17. Sharon, M., Rosen, O., and Anglister, J. (2005) NMR studies of V3 peptide complexes with antibodies suggest a mechanism for HIV-1 coreceptor selectivity. Curr. Opin. Drug Discov. Dev. 8, 601-612.
18. Sharon, M., Kessler, N., Levy, R., Zolla-Pazner, S., Gorlach, M., and Anglister, J. (2003) Alternative conformations of HIV-1 V3 loops mimic beta hairpins in chemokines, suggesting a mechanism for coreceptor selectivity. Structure 11, 225-236.
19. Tugarinov, V., Zvi, A., Levy, R., and Anglister, J. (1999) A cis proline turn linking two beta-hairpin strands in the solution structure of an antibody-bound HIV-1IIIB V3 peptide. Nat. Struct. Biol. 6, 331-335.
20. Tugarinov, V., Zvi, A., Levy, R., Hayek, Y., Matsushita, S., and Anglister, J. (2000) NMR structure of an anti-gp120 antibody complex with a V3 peptide reveals a surface important for co-receptor binding. Struct. Folding Des. 8, 385-395.
21. Stanfield, R. L., Gorny, M. K., Williams, C., Zolla-Pazner, S., and Wilson, I. A. (2004) Structural rationale for the broad neutralization of HIV-1 by human monoclonal antibody 447-52D. Structure 12, 193-204.
22. Stanfield, R. L., Gorny, M. K., Zolla-Pazner, S., and Wilson, I. A. (2006) Crystal structures of human immunodeficiency virus type 1 (HIV-1) neutralizing antibody 2219 in complex with three different V3 peptides reveal a new binding mode for HIV-1 cross-reactivity. J. Virol. 80, 6093-6105.
23. Bell, C. H., Pantophlet, R., Schiefner, A., Cavacini, L. A., Stanfield, R. L., Burton, D. R., and Wilson, I. A. (2008) Structure of antibody F425-B4e8 in complex with a V3 peptide reveals a new binding mode for HIV-1 neutralization. J. Mol. Biol. 375, 969-978.
24. Huang, C. C., Lam, S. N., Acharya, P., Tang, M., Xiang, S. H., Hussan, S. S., Stanfield, R. L., Robinson, J., Sodroski, J., Wilson, I. A., Wyatt, R., Bewley, C. A., and Kwong, P. D. (2007) Structures of the CCR5Nterminus and of a tyrosine-sulfated antibody with HIV-1 gp120 and CD4. Science 317, 1930-1934.
25. Rosen, O., Sharon, M., Quadt-Akabayov, S. R., and Anglister, J. (2006) Molecular switch for alternative conformations of the HIV-1 V3 region: implications for phenotype conversion. Proc. Natl. Acad. Sci. U.S.A. 103, 13950-13955.
26. Rini, J. M., Stanfield, R. L., Stura, E. A., Salinas, P. A., Profy, A. T., and Wilson, I. A. (1993) Crystal structure of a human immunodeficiency virus type 1 neutralizing antibody, 50.1, in complex with its V3 loop peptide antigen. Proc. Natl. Acad. Sci. U.S.A. 90, 6325-6329.
27. Ghiara, J. B., Stura, E. A., Stanfield, R. L., Profy, A. T., and Wilson, I. A. (1994) Crystal structure of the principal neutralization site of HIV-1. Science 264, 82-85.
28. Stanfield, R. L., Ghiara, J. B., Ollmann Saphire, E., Profy, A. T., and Wilson, I. A. (2003) Recurring conformation of the human immunodeficiency virus type 1 gp120 V3 loop. Virology 315, 159-173.
29. Haynes, B. F., Ma, B., Montefiori, D. C., Wrin, T., Petropoulos, C. J., Sutherland, L. L., Scearce, R. M., Denton, C., Xia, S. M., Korber, B. T., and Liao, H. X. (2006) Analysis of HIV-1 subtype B third variable region peptide motifs for induction of neutralizing antibodies against HIV-1 primary isolates. Virology 345, 44-55.
30. Liao, H. X., Etemad-Moghadam, B., Montefiori, D. C., Sun, Y., Sodroski, J., Scearce, R. M., Doms, R. W., Thomasch, J. R., Robinson, S., Letvin, N. L., and Haynes, B. F. (2000) Induction of antibodies in guinea pigs and rhesus monkeys against the human immunodeficiency virus type 1 envelope: neutralization of nonpathogenic and pathogenic primary isolate simian/human immunodeficiency virus strains. J. Virol. 74, 254-263.
31. Letvin, N. L., Robinson, S., Rohne, D., Axthelm, M. K., Fanton, J. W., Bilska, M., Palker, T. J., Liao, H. X., Haynes, B. F., and Montefiori, D. C. (2001) Vaccine-elicited V3 loop-specific antibodies in rhesus monkeys and control of a simian-human immunodeficiency virus expressing a primary patient human immunodeficiency virus type 1 isolate envelope. J. Virol. 75, 4165-4175.
32. Someya, K., Cecilia, D., Ami, Y., Nakasone, T., Matsuo, K., Burda, S., Yamamoto, H., Yoshino, N., Kaizu, M., Ando, S., Okuda, K., Zolla-Pazner, S., Yamazaki, S., Yamamoto, N., and Honda, M. (2005) Vaccination of rhesus macaques with recombinant Mycobacterium bovis bacillus Calmette-Guerin Env V3 elicits neutralizing antibody-mediated protection against simian-human immunodeficiency virus with a homologous but not a heterologous V3 motif. J. Virol. 79, 1452-1462.
33. Hewer, R., and Meyer, D. (2005) Evaluation of a synthetic vaccine construct as antigen for the detection of HIV-induced humoral responses. Vaccine 23, 2164-2167.
34. Golding, B., Eller, N., Levy, L., Beining, P., Inman, J., Matthews, N., Scott, D. E., and Golding, H. (2002) Mucosal immunity in mice immunized with HIV-1 peptide conjugated to Brucella abortus. Vaccine 20, 1445-1450.
35. Liao, H. X., Haynes, B., Korber, B., De-Lorimier, R. M. (2004) Polyvalent Immunogen, W/O 2004/075850.
36. Chandrasekhar, K., Profy, A. T., and Dyson, H. J. (1991) Solution conformational preferences of immunogenic peptides derived from the principal neutralizing determinant of the HIV-1 envelope glycoprotein gp120. Biochemistry 30, 9187-9194.
37. Zvi, A., Hiller, R., and Anglister, J. (1992) Solution conformation of a peptide corresponding to the principal neutralizing determinant of HIV-1IIIB: a two-dimensional NMR study. Biochemistry 31, 6972-6979.
38. Santiveri, C. M., Leon, E., Rico, M., and Jimenez, M. A. (2008) Context-dependence of the contribution of disulfide bonds to betahairpin stability. Chemistry 14, 488-499.
39. Cabezas, E., Wang, M., Parren, P. W., Stanfield, R. L., and Satterthwait, A. C. (2000) A structure-based approach to a synthetic vaccine for HIV-1. Biochemistry 39, 14377-14391.
40. Cabezas, E., and Satterthwait, A. C. (1999) The hydrogen bond mimic approach: Solid-phase synthesis of a peptide stabilized as an alpha-helix with a hydrazone link. J. Am. Chem. Soc. 121, 3862-3875.
41. Conley, A. J., Conard, P., Bondy, S., Dolan, C. A., Hannah, J., Leanza, W. J., Marburg, S., Rivetna, M., Rusiecki, V. K., and Sugg, E. E.; et al. (1994) Immunogenicity of synthetic HIV-1 gp120 V3-loop peptide-conjugate immunogens. Vaccine 12, 445-451.
42. Chakraborty, K., Durani, V., Miranda, E. R., Citron, M., Liang, X., Schleif, W., Joyce, J. G., and Varadarajan, R. (2006) Design of immunogens that present the crown of the HIV-1 V3 loop in a conformation competent to generate 447-52D-like antibodies. Biochem. J. 399, 483-491.
43. Mor, A., Segal, E., Mester, B., Arshava, B., Rosen, O., Ding, F. X., Russo, J., Dafni, A., Schvartzman, F., Scherf, T., Naider, F., and Anglister, J. (2009) Mimicking the structure of the V3 epitope bound to HIV-1 neutralizing antibodies. Biochemistry 48, 3288-3303.
44. Sharon, M., Gorlach, M., Levy, R., Hayek, Y., and Anglister, J. (2002) Expression, purification, and isotope labeling of a gp120 V3 peptide and production of a Fab from a HIV-1 neutralizing antibody for NMR studies. Protein Expression Purif. 24, 374-383.
45. Bravman, T., Bronner, V., Lavie, K., Notcovich, A., Papalia, G. A., and Myszka, D. G. (2006) Exploring "one-shot" kinetics and small molecule analysis using the ProteOn XPR36 array biosensor. Anal. Biochem. 358, 281-288.
46. Myszka, D. G. (1999) Improving biosensor analysis. J. Mol. Recognit. 12, 279-284.
47. Leavitt, S., and Freire, E. (2001) Direct measurement of protein binding energetics by isothermal titration calorimetry. Curr. Opin. Struct. Biol. 11, 560-566.
48. Awasthi, S. K., Raghothama, S., and Balaram, P. (1995) A designed beta-hairpin peptide. Biochem. Biophys. Res. Commun. 216, 375-381.
49. Haque, T. S., Little, J. C., and Gellman, S. H. (1996) Stereochemical requirements for beta-hairpin formation:model studies with four-residue peptides and depsipeptides. J. Am. Chem. Soc. 118, 6975-6985.
50. Ramirez-Alvarado, M., Blanco, F. J., and Serrano, L. (1996) De novo design and structural analysis of a model beta-hairpin peptide system. Nat. Struct. Biol. 3, 604-612.
51. Keller, P. M., Arnold, B. A., Shaw, A. R., Tolman, R. L., Van Middlesworth, F., Bondy, S., Rusiecki, V. K., Koenig, S., Zolla-Pazner, S., and Conard, P.; et al. (1993) Identification of HIV vaccine candidate peptides by screening random phage epitope libraries. Virology 193, 709-716.