Conformational aspects of HIV-1 integrase inhibition by a peptide derived from the enzyme central domain and by antibodies raised against this peptide

European Journal of Biochemistry

Volumn 260, Issue 1, 1999, Pages 145-155

  Maroun, Richard G ^a   Krebs, Daniel ^b   Roshani, Mahmoud ^a   Porumb, Horea ^a   Auclair, Christian ^a   Troalen, Frédéric ^a   Fermandjian, Serge ^a  

^a INSTITUT GUSTAVE ROUSSY   (France)

^b IFRMP   (France)

Author keywords

Antibodies; Conformational aspects; HIV integrase; Inhibition; Peptides

Indexed keywords

INTEGRASE; K159 ANTIBODY; PEPTIDE ANTIBODY; SYNTHETIC PEPTIDE; UNCLASSIFIED DRUG; VIRUS ENZYME;

AMINO ACID SEQUENCE; ARTICLE; ENZYME CONFORMATION; ENZYME INACTIVATION; HUMAN IMMUNODEFICIENCY VIRUS 1; NONHUMAN; PRIORITY JOURNAL; PROTEIN DOMAIN; VIRUS REPLICATION;

AMINO ACID SEQUENCE; CIRCULAR DICHROISM; DNA-BINDING PROTEINS; EPITOPES; HIV ANTIBODIES; HIV INTEGRASE; HIV INTEGRASE INHIBITORS; MAGNETIC RESONANCE SPECTROSCOPY; MOLECULAR SEQUENCE DATA; PEPTIDE FRAGMENTS; PLASMIDS; PROTEIN BINDING; PROTEIN CONFORMATION; PROTEIN STRUCTURE, SECONDARY; STRUCTURE-ACTIVITY RELATIONSHIP; TRIFLUOROETHANOL;

HUMAN IMMUNODEFICIENCY VIRUS; HUMAN IMMUNODEFICIENCY VIRUS 1; RNA VIRUSES;

EID: 0033557819     PISSN: 00142956     EISSN: None     Source Type: Journal    
DOI: 10.1046/j.1432-1327.1999.00130.x     Document Type: Article

References (63)

1. Goff, S.P. (1992). Genetics of retroviral integration. Annu. Rev. Genet. 26, 527-544.
2. Katz, R.A. & Skalka, A.M. (1994) The retroviral enzymes. Annu. Rev. Biochem. 63, 87-95.
3. Katz, R.A., Merkel, G., Kulkosky, J., Leis, J. & Skalka, A.M. (1990) The avian retroviral IN protein is both necessary and sufficient for integrative recombination in vitro. Cell 63, 87-95.
4. La Femina, R.L., Schneider, C.L., Robbins, H.L., Callahan, P.L., LeGrow, K., Roth, E., Schleif, W.A. & Emini, E.A. (1992) Requirement of active immunodeficiency type 1 integrase for productive infection of human T-lymphoid cells. J. Virol. 66, 7414-7419.
5. Chow, S.A. & Brown, P.O. (1994) Substrate features important for recognition and catalysis by human immunodeficiency virus type 1 integrase identified by using novel DNA substartes. J Virol. 68, 3896-3907.
6. Hickman, A.B., Palmer, I., Engelman, A., Craigie, R. & Wingfield, P. (1994) Biophysical and enzymatic properties of the catalytic domain of HIV-1 integrase. J. Biol. Chem. 269, 29279-29287.
7. Kulkosky, J., Jones, K.S., Katz, R.A., Mack, J.P.G. & Skalka, A.M. (1992) Residues critical for retroviral integrative recombination in a region that is highly conserved among retroviral/retrotransposon integrases and bacterial insertion sequence transposases. Mol. Cell. Biol. 12, 2331-2338.
8. Bushman, F.D. & Craigie, R. (1991) Activities of human immunodeficiency virus (HIV) integration protein in vitro: specific cleavage and integration of HIV DNA. Proc. Natl Acad. Sci. USA 88, 1339-1343.
9. Craigie, R., Fujiwara, T. & Bushman, F. (1990) The IN protein of Moloney murine leukemia virus processes the viral DNA ends and accomplishes their integration in vitro. Cell 62, 829-837.
10. Engelman, A., Mizuuchi, K. & Craigie, R. (1991) HIV-1 DNA integration: mechanism of viral DNA cleavage and DNA strand transfer. Cell 67, 1211-1221.
11. Mizuuchi, K. (1992) Polynucleotidyl transfer reactions in transpositional DNA recombination. J. Biol. Chem. 267, 21273-21276.
12. De Clercq, E. (1995) Toward improved anti-HIV chemotherapy: therapeutic strategies for intervention with HIV infections. J. Med. Chem. 14, 2491-2517.
13. Vink, C. & Plasterk, R.H.A. (1993) The human immunodeficiency virus integrase protein. Trends Genet. 9, 433-437.
14. Andrake, M.D. & Skalka, A.M. (1996) Retroviral integrase, putting the pieces together. J. Biol. Chem. 271, 19633-19636.
15. Burke, C., Sanyal, J.G., Bruner, M.W., Ryan, J.A., LaFemina, R.L., Robbins, H.L., Zeft, A.S., Russel Middaugh, C. & Cordingley, M.G. (1992) Structural implications of spectroscopic characterization of a putative zinc finger peptide from HIV-1 integrase. J. Biol. Chem. 267, 9638-9644.
16. McEuen, A.R., Edwards, B., Koepke, K.A., Ball, A.E., Jennings, B.A., Wolstenholme, A.J., Danson, M.J. & Hough, D.W. (1992) Zinc binding by retroviral integrase. Biochem. Biophys. Res. Commun. 189, 813-818.
17. Cai, M., Zheng, R., Caffery, M., Craigie, R., Marius Clore, G. & Gronenborn, A.M. (1997) Solution structure of the N-terminal zinc binding domain of HIV-1 integrase. Nature Struct. Biol. 7, 567-576.
18. Vink, C., oude Groeneger, A.M. & Plasterk, R.H. (1993) Identification of the catalytic and DNA-binding region of the human immunodeficiency virus type I integrase protein. Nucl. Acids. Res. 21, 1419-1425.
19. Engelman, A., Hickman, A.B. & Craigie, R. (1994) The core and carboxyl-terminal domains of the integrase protein of human immunodeficiency virus type 1 each contribute to nonspecific DNA binding. J. Virol. 68, 5911-5917.
20. Woerner, A.M. & Marcus-Sekura, C.J. (1993) Characterization of a DNA binding domain in the C-terminus of HIV-1 integrase by deletion mutagenesis. Nucl. Acids Res. 21, 3507-3511.
21. Lodi, P.J., Ernst, J.A., Kuszewski, J., Hickman, A.B., Engelman, A., Craigie, R., Clore, G.M. & Gronenborn, A.M. (1995) Solution structure of the DNA binding domain of HIV-1 integrase. Biochemistry 34, 9826-9833.
22. Eijkelenboom, A.P.A.M., Puras Lutzke, R.A., Boelems, R., Plasterk, R.H.A., Kaptein, R. & Hard, K. (1995) The DNA-binding domain of HIV-1 integrase has an SH3-like fold. Nat. Struct. Biol. 2, 807-810.
23. Roth, M.J., Schwartzberg, P.L. & Goff, S.P. (1989) Structure of the termini of DNA intermediates in the integration of retroviral DNA: dependence on IN function and terminal DNA sequence. Cell 58, 47-54.
24. Schauer, M. & Billich, A. (1992) The N-terminal region of HIV-1 integrase is required for integration activity, but not for DNA-binding. Biochem. Biophys. Res. Commun. 185, 874-880.
25. Chow, S.A., Vincent, K.A., Ellison, V. & Brown, P.O. (1992) Reversal of integration and DNA splicing mediated by integrase of human immunodeficiency virus. Science 255, 723-726.
26. Bushman, F.D., Engelman, A., Palmer, I., Wingfield, P. & Craigie, R. (1993) Domains of the integrase protein of human immunodeficiency virus type 1 responsible for polynucleotidyl transfer and zinc binding. Proc. Natl Acad. Sci. USA 90, 3428-3432.
27. Dyda, F., Hickman, A.B., Jenkins, T.M., Engelman, A., Craigie, R. & Davies, D.R. (1994) Crystal structure of the catalytic domain of HIV-1 integrase: similarity to other polynucleotidyl transferases. Science 266, 1981-1986.
28. Bujacz, G., Jaskolski, M., Alexandratos, J., Wlodawer, A., Merkel, G., Katz, R.A. & Skalka, A.M. (1995) Crystal structure of the catalytic domain of HIV-1 integrase: similarity to other polynucleotidyl transferases. J. Mol. Biol. 253, 333-346.
29. Rice, P., Craigie, R. & Davies, D.R. (1996) Retroviral integrases and their cousins. Curr. Opin. Struct. Biol. 6, 76-83.
30. Ellison, V. & Brown, P.O. (1994) A stable complex between integrase and viral DNA ends mediates human immunodeficiency virus integration in vitro. Proc. Natl Acad. Sci. USA 91, 7316-7320.
31. Pemberton, I.K., Buckle, M. & Buc, H. (1996) The metal ion induced cooperative binding of HIV-1 integrase to DNA exhibits a marked preference for Mn(II) rather than Mg(II). J. Biol. Chem. 271, 1498-1506.
32. Jenkins, T.M., Esposito, D., Engelman, A. & Craigie, R. (1998) Critical contacts between HIV-1 integrase and viral DNA identified by structure-based analysis and photo-crosslinking. EMBO J. 16, 6849-6859.
33. Lin, T.H. & Grandgenett, D.P. (1991) Retrovirus integrase: identification of a potential leucine-zipper motif. Protein Eng. 4, 435-441.
34. Sourgen, F., Maroun, R.G., Frère, V., Bouziane, M., Auclair, C., Troalen, F. & Fermandjian, S. (1996) A synthetic peptide from the human immunodeficiency virus type-1 integrase exhibits coiled-coil properties and interferes with the in vitro integration activity of the enzyme. Correlated biochemical and spectroscopic results. Eur. J. Biochem. 240, 765-773.
35. Garnier, J., Osguthorpe, D.J. & Robson, B. (1978) Analysis of the accuracy and implications of simple methods for predicting the secondary structure of globular proteins. J. Mol. Biol. 120, 97-120.
36. Biou, V., Gibrat, J.F., Levin, J., Robsonand, B. & Garnier, J. (1988) Secondary structure prediction: combination of three different methods. Protein Eng. 2, 185-191.
37. Muñoz, V. & Serrano, L. (1994) Elucidating the folding problem of helical peptides using empirical parameters. Nat. Struct. Biol. 1, 399-409.
38. Muñoz, V. & Serrano, L. (1995a) Elucidating the folding problem of helical peptides using empirical parameters. II. Helix macrodipole effects and rational modification of the helical content of natural peptides. J. Mol. Biol. 245, 275-297.
39. Muñoz, V. & Serrano, L. (1995b) Elucidating the folding problem of helical peptides using empirical parameters. III. Temperature and pH dependence. J. Mol. Biol. 245, 297-308.
40. Sherman, P.A. & Fyfe, J.A. (1990) Human immunodeficiency virus integration protein expressed in Escherichia coli possesses selective DNA cleaving activity. Proc. Natl Acad. Sci. USA 87, 5119-5123.
41. Haugan, I.R., Nilsen, B.M., Worland, S., Olsen, L. & Helland, D.E. (1995) Characterization of the DNA-binding activity of HIV-1 integrase using a filter binding assay. Biochem. Biophys. Res. Commun. 217, 802-810.
42. Carteau, S., Mouscadet, J.F., Goulaouic, H., Subra, F. & Auclair, C. (1993) Quantitative in vitro assay for human immunodeficiency virus deoxyribonucleic acid integration. Arch. Biochem. Biophys. 300, 756-760.
43. 3. Zhong, L. & Johnson, W.C. (1992) Environment affects amino acid preference for secondary structure. Proc. Natl Acad. Sci. USA 89, 4462-4465.
44. Holler, T.P., Foltin, S.K.Y.e., Q.Z. & Hupe, D.J. (1993) HIV-1 integrase expressed in E. coli from a synthetic gene. Gene 136, 323-328.
45. Chakrabartty, A., Kortemme, T. & Baldwin, R.L. (1994) Helix propensities of the amino acids measured in alanine-based peptides without helix-stabilizing side-chain interactions. Protein Sci. 3, 843-852.
46. Mazumder, A., Cooney, D., Agbaria, R., Gupta, M. & Pommier, Y. (1994) Inhibition of human immunodeficiency virus type 1 integmse by 3′-azido-3′-deoxythymidylate. Proc. Natl Acad. Sci. USA 13, 5771-5775.
47. Allen, P., Worland, S. & Gold, L. (1995) Isolation of high-affinity RNA ligands to HIV-1 integrase from a random pool. Virology 209, 327-336.
48. Müller, B., Bizub-Bender, D., Andrake, M.D., Jones, K.S. & Skalka, M. (1995) Monoclonal antibodies against Rous sarcoma virus integrase protein exert differential effects on integrase function in vitro. J. Virol. 69, 5631-5639.
49. Miller, M.D. & Bushman, F.D. (1995) HIV integration. Ini1 for integration? Curr. Biol. 5, 368-370.
50. Pemberton, I.K., Buc, H. & Buckle, M. (1998) The metal ion induced cooperative binding of HIV-1 integrase to DNA exhibits a marked preference for Mn(II) rather than Mg(II), Biochemistry 37, 2682-2690.
51. Vinga-Martins, C., Schneider, T., Werno, A., Roenspeck, W., Pauli, G. & Mueller-Lantzsch, N. (1992) Mapping of immunodominant epitopes of the HIV-1 and HIV-2 integrase proteins by recombinant proteins and synthetic peptides. AIDS Res. Hum. Retrovir. 8, 43-47.
52. Bender, D.B., Kulkosky, J. & Skalka, A.M. (1994) Monoclonal antibodies against HIV type 1 integrase: clues to molecular structure. AIDS Res. Hum. Retroviruses 10, 1105-1115.
53. Nilsen, B.M., Haugan, I.R., Berg, K., Olsen, L., Brown, P.O. & Helland, D.E. (1996) Monoclonal antibodies against human immunodeficiency virus type 1 integrase: epitope mapping and differential effects on integrase activities in vitro. J. Virol. 70, 1580-1587.
54. Barsov, E.V., Huber, W.E., Marcotrigiano, J., Clark, P.K., Clark, A.D., Arnold, E. & Hughes, S.H. (1996) Inhibition of human immunodeficiency virus type I integrase by the Fab fragment of a specific monoclonal antibody suggests that different multimerization states are required for different enzymatic function. J. Virol. 70, 4484-4494.
55. Levy-Mintz, P., Duan, L., Zhang, H.H.U.B., Dornadula, G., Zhu, M., Kulkosky, J., Bizub-bender, D., Skalka, A.M. & Pomerantz, R. (1996) Intracellular expression of single-chain variable fragments to inhibit early stages of the viral life cycle by targeting human immunodeficiency virus type 1 integrase. J. Virol. 70, 8821-8832.
56. Clackson, T. & Wells, J.A. (1995) A hot spot of binding energy in a hormone-receptor interface. Science 267, 383-386.
57. Livna, O., Stura, E.A., Johnson, D.L., Middleton, S.A., Mulcahy, L.S., Wrighton, N.C., Dower, W.J., Jolliffe, L.K. & Wilson, I.A. (1996) Functional mimicry of a protein hormone by a peptide agonist: the EPO receptor complex at 2.8Å. Science 273, 464-471.
58. Satoh, T., Aramini, J.M., Li, S., Friedman, T.M., Gao, J., Edling, A.E., Townsend, R., Koch, U., Choksi, S., Germann, M.W., Korngold, R. & Huang, Z. (1997) Bioactive peptide design based on protein surface epitopes. A cyclic heptapeptide mimics CD4 domain 1CC′ loop and ihibits CD4 biological function. J. Biol. Chem. 272, 12175-12180.
59. Janin, J. & Chotia, C. (1990) The structure of protein-protein recognition sites. J. Biol. Chem. 265, 16027-16030.
60. Fieser, T.M., Tainer, J.A., Geysen, H.M., Houghten, R.A. & Lerner, R.A. (1987) Influence of protein flexibility and peptide conformation on reactivity of monoclonal anti-peptide antibodies with a protein α-helix. Proc. Natl Acad. Sci. USA 84, 8568-8572.
61. Lupas, A. (1996) Coiled coils: new structures and new functions. Trends Biochem. Sci. 21, 375-382.
62. Heuer, T.S. & Brown, P.O. (1997) Mapping features of HIV-1 integrase near selected sites on viral and target DNA molecules in an active enzyme-DNA complex by photo-cross-linking, Biochemistry 36, 10655-10665.
63. Piotto, M., Saudek, V. & Sklenar, V. (1992) Gradient-tailored excitation for single-quantum NMR spectroscopy of aqueous solutions. J. Biomol. NMR 2, 661-666.