Abstract
Integration is an essential step in the replication cycle of a retrovirus, such as the human immunodeficiency virus type 1 (HIV-1) (for a review, see ref. 1). After reverse transcription of the RNA genome, the DNA copy is transported into the nucleus and integrated in the host chromosome. The only viral enzyme required for HIV-1 integration is integrase (IN), a protein of 32 kDa encoded by the 3′-end of the pol gene. The enzyme is produced by protease-mediated cleavage of the gag-pol precursor during virion maturation. Integrase can be considered a site-specific endonuclease; the removal of two nucleotides creates a hydroxyl residue at each 3′-end of the viral DNA that will carry out a nucleophilic attack on the phosphodiester backbone of the host DNA.
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References
Brown, P. O. (1997) Integration, in Retroviruses (Coffin, J. M., Hughes, S. H., and Varmus, H. E., eds.), Cold Spring Harbor Laboratory, Cold Spring Harbor, NY, pp. 161–203.
Chow, S. A., Vincent, K. A., Ellison, V., and Brown, P. O. (1992) Reversal of integration and DNA splicing mediated by integrase of human immunodeficiency virus. Science 255, 723–726.
Farnet, C. M. and Haseltine, W. A. (1990) Integration of human immunodeficiency virus type 1 DNA in vitro. Proc. Natl. Acad. Sci. USA 87, 4164–4168.
Engelman, A., Bushman, F. D., and Craigie, R. (1993) Identification of discrete functional domains of HIV-1 integrase and their organization within an active multimeric complex. EMBO J. 12, 3269–3275.
van Gent, D. C., Vink, C., Oude Groeneger, A. A. M., and Plasterk, R. H. A. (1993) Complementation between HIV integrase proteins mutated in different domains. EMBO J. 12, 3261–3267.
Pommier, Y., Pilon, A. A., Bajaj, K., Mazumder, A., and Neamati, N. (1997) HIV-1 integrase as a target for antiviral drugs. Antiviral Chem. Chemother. 8, 463–483.
Katzman, M., Katz, R. A., Skalka, A. M., and Leis, J. (1989) The avian retroviral integration protein cleaves the terminal sequences of linear viral DNA at the in vivo sites of integration. J. Virol. 63, 5319–5327.
Katz, R. A., Merkel, G., Kulkosky, J., Leis, J., and Skalka, A. M. (1990) The avian retroviral IN protein is both necessary and sufficient for integrative recombination in vitro. Cell 63, 87–95.
Craigie, R., Fujiwara, T., and Bushman, F. D. (1990) The IN protein of Moloney murine leukemia virus processes the viral DNA ends and accomplishes their integration in vitro. Cell 62, 829–837.
van Gent, D. C., Oude Groeneger, A. A. M., and Plasterk, R. H. A. (1992) Mutational analysis of the integrase protein of human immunodeficiency virus type 2. Proc. Natl. Acad. Sci. USA 89, 9598–9602.
Vink, C., van der Linden, K. H., and Plasterk, R. H. A. (1994) Activities of the feline immunodeficiency virus integrase protein produced in Escherichia coli. J. Virol. 68, 1468–1474.
Shibagaki, Y., Holmes, M. L., Appa, R. S., and Chow, S. A. (1997) Characterization of feline immunodeficiency virus integrase and analysis of functional domains. Virology 230, 1–10.
Störmann, K. D., Schlecht, M. C., and Pfaff, E. (1995) Comparative studies of bacterially expressed integrase proteins of caprine arthritis-encephalitis virus, maedi-visna virus and human immunodeficiency virus type 1. J. Gen. Virol. 76, 1651–1663.
Wright, M. (1971) Mutants of Escherichia coli lacking endonucleaseI, ribonuclease I, or ribonuclease II. J. Bacteriol. 107, 87–94.
Cherepanov, P. P. and Wackernagel, W. (1995) Gene disruption in Escherichia coli: TcR and KmR cassettes with the option of Flp-catalyzed excision of the antibiotic-resistance determinant. Gene 158, 9–14.
Goodarzi, G., Im, G.-J., Brackmann, K., and Grandgenett, D. (1995) Concerted integration of retrovirus-like DNA by human immunodeficiency virus type 1 integrase. J. Virol. 69, 6090–6097.
Bushman, F. D. and 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.
Cherepanov, P., Surratt, D., Toelen, J., Pluymers, W., Griffith, J., De Clercq, E., and Debyser, Z. (1999) Activity of recombinant HIV-1 integrase on mini-HIV DNA. Nucleic Acids Res. 27, 2202–2210.
Craigie, R., Mizuuchi, K., Bushman, F. D., and Engelman, A. (1991) A rapid in vitro assay for HIV DNA integration. Nucleic Acid. Res. 19, 2729–2734.
Sherman, P. A. and 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.
van Gent, D. C., Elgersma, Y., Bolk, M. W. J., Vink, C., and Plasterk, R. H. A. (1991) DNA binding properties of the integrase proteins of human immunodeficiency viruses types 1 and 2. Nucleic Acids Res. 19, 3821–3827.
Hazuda, D. J., Hastings, J. C., Wolfe, A. L., and Emini, E. A. (1994) A novel assay for the DNA strand-transfer reaction of HIV-1 integrase. Nucleic Acids Res. 22, 1121–1122.
Vink, C., Banks, M., Bethell, R., and Plasterk, R. H. A. (1994) A high-throughput, non-radioactive microtiter plate assay for activity of the human immunodeficiency virus integrase protein. Nucleic Acids Res. 22, 2176,2177.
Sambrook, J., Fritsch, E. F., and Maniatis, T. (1989) Molecular Cloning, 2nd ed. Cold Spring Harbor Laboratory, Cold Spring Harbor, NY.
Cherepanov, P., Esté, J. A., Rando, R. F., Ojwang, J. O., Reekmans, G., Steinfeld, R., David, G., De Clercq, E., and Debyser, Z. (1997) Mode of interaction of G-quartets with the integrase of human immunodeficiency virus type 1 (HIV-1) Mol. Pharmcol. 52, 771–780.
Lipford, J. R., Worland, S. T., and Farnet, C. (1994) Nucleotide binding by the HIV-1 integrase protein in vitro. J. AIDS 7, 1215–1223.
Yoshinaga, T., Kimura-Ohtani, Y., and Fujiwara, T. (1994) Detection and characterization of a functional complex of human immunodeficiency virus type 1 integrase and its DNA substrate by UV cross-linking. J. Virol. 68, 5690–5697.
Farnet, C. M. and Bushman, F. D. (1996) Differential inhibition of HIV-1 preintegration complexes and purified integrase protein by small molecules. Proc. Natl. Acad. Sci. USA 93, 9742–9747.
Ausubel, F. M., et al. (ed.) Current Protocols in Molecular Biology. Wiley, New York.
Bushman, F. D., Fujiwara, T., and Craigie, R. (1990) Retroviral DNA integration directed by HIV integration protein in vitro. Science 249, 1555–1558.
Fitzgerald, M. L., Vora, A. C., Zeh, W. G., and Grandgenett, D. P. (1992) Concerted integration of viral DNA termini by purified avian myeloblastosis virus integrase. J. Virol. 66, 6257–6263.
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Debyser, Z., Cherepanov, P., Pluymers, W., De Clercq, E. (2001). Assays for the Evaluation of HIV-1 Integrase Inhibitors. In: Schein, C.H. (eds) Nuclease Methods and Protocols. Methods in Molecular Biology™, vol 160. Humana Press. https://doi.org/10.1385/1-59259-233-3:139
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DOI: https://doi.org/10.1385/1-59259-233-3:139
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