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journal article Sep 01, 1997

Structure of Cre recombinase complexed with DNA in a site-specific recombination synapse

Feng Guo ORCID Deshmukh N. Gopaul Gregory D. Van Duyne
Nature Vol. 389 No. 6646 pp. 40-46 · Springer Science and Business Media LLC
View at Publisher Save 10.1038/37925
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References
50
[1]
Craig, N. L. The mechanism of conservative site-specific recombination. Annu. Rev. Genet. 22, 77–105 (1988).
[2]
Stark, W. M., Boocock, M. R. & Sherratt, D. J. Catalysis by site-specific recombinases. Trends Genet. 8, 432–439 (1992).
[3]
Kwon, H. J., Tirumalai, R., Landy, A. & Ellenberger, T. Flexibility in DNA recombination: structure of the lambda integrase catalytic core. Science 276, 126–131 (1997).
[4]
Argos, P.et al. The integrase family of site-specific recombinases: regional similarities and global diversity. EMBO J. 5, 433–440 (1986).
[5]
Abremski, K. E. & Hoess, R. H. Evidence for a second conserved arginine residue in the integrase family of recombination proteins. Protein Eng. 5, 87–91 (1992).
[6]
Landy, A. Dynamic, structural, and regulatory aspects of lambda site-specific recombination. Annu. Rev. Biochem. 58, 913–949 (1989).
[7]
Abremski, K., Hoess, R. & Sternberg, N. Studies on the properties of P1 site-specific recombination: evidence for topologically unlinked products following recombination. Cell 32, 1301–1311 (1983).
[8]
Abremski, K. & Hoess, R. Bacteriophage P1 site-specific recombination. Purification and properties of the Cre recombinase protein. J. Biol. Chem. 259, 1509–1514 (1984).
[9]
Sternberg, N., Hamilton, D., Austin, S., Yarmolinsky, M. & Hoess, R. Site-specific recombination and its role in the life cycle of bacteriophage P1. Cold Spring Harbor Symp. Quant. Biol. 1, 297–309 (1981).
[10]
Sauer, B. Manipulation of transgenes by site-specific recombination: use of Cre recombinase. Meth. Enzymol. 225, 890–900 (1993).
[11]
Kilby, N. J., Snaith, M. R. & Murray, J. A. Site-specific recombinases: tools for genome engineering. Trends Genet. 9, 413–421 (1993).
[12]
Tsurushita, N., Fu, H. & Warren, C. Phage display vectors for in vivo recombination of immunoglobulin heavy and light chain genes to make large combinatorial libraries. Gene 172, 59–63 (1996).
[13]
Qin, M., Bayley, C., Stockton, T. & Ow, D. W. Cre recombinase-mediated site-specific recombination between plant chromosomes. Proc. Natl Acad. Sci. USA 91, 1706–1710 (1994).
[14]
Lakso, M.et al. Targeted oncogene activation by site-specific recombination in transgenic mice. Proc. Natl Acad. Sci. USA 89, 6232–6236 (1992).
[15]
Betz, U. A., Vosshenrich, C. A., Rajewsky, K. & Muller, W. Bypass of lethality with mosaic mice generated by Cre-loxP-mediated recombination. Curr. Biol. 6, 1307–1316 (1996).
[16]
Zou, Y. R., Muller, W., Gu, H. & Rajewsky, K. Cre-loxP-mediated gene replacement: a mouse strain producing humanized antibodies. Curr. Biol. 4, 1099–1103 (1994).
[17]
Kuhn, R., Schwenk, F., Aguet, M. & Rajewsky, K. Inducible gene targeting in mice. Science 269, 1427–1429 (1995).
[18]
Metzger, D., Clifford, J., Chiba, H. & Chambon, P. Conditional site-spedific recombination in mammalian cells using a ligand-dependent chimeric Cre recombinase. Proc. Natl Acad. Sci. USA 92, 6991–6995 (1995).
[19]
Hickman, A. B., Waninger, S., Scocca, J. J. & Dyda, F. Molecular organization in site-specific recombination: the catalytic domain of bacteriophage HP1 integrase at 2.7 Å resolution. Cell 89, 227–237 (1997).
[20]
Subramanya, H. S.et al. Crystal structure of the site-specific recombinase, XerD. EMBO J. 17, 5178–5187 (1997).
[21]
Schultz, S. C., Shields, G. C. & Steitz, T. A. Crystallization of Escherichia coli catabolite gene activator protein with its DNA-binding site. The use of modular DNA. J. Mol. Biol. 213, 159–166 (1990).
[22]
Pargellis, C. A., Nunes-Duby, S., de, V. L. & Landy, A. Suicide recombination substrates yield covalent lambda integrase-DNA complexes and lead to identification of the active site tyrosine. J. Biol. Chem. 263, 7678–7685 (1988).
[23]
Sigal, N. & Alberts, B. Genetic recombination: the nature of crossed strand-exchange between two homologous DNA molecules. J. Mol. Biol. 71, 789–793 (1972).
[24]
Duckett, D. R.et al. The structure of the Holliday junction, and its resolution. Cell 55, 79–89 (1988).
[25]
Hoess, R. H. & Abremski, K. Interaction of the bacteriophage P1 recombinase Cre with the recombining site loxP. Proc. Natl Acad. Sci. USA 81, 1026–1029 (1984).
[26]
Hoess, R., Abremski, K., Irwin, S., Kendall, M. & Mack, A. DNA specificity of the Cre recombinase resides in the 25 kDa carboxyl domain of the protein. J. Mol. Biol. 216, 873–882 (1990).
[27]
Chen, J. W., Lee, J. & Jayaram, M. DNA cleavage in trans by the active site tyrosine during Flp recombination: switching protein partners before exchanging strands. Cell 69, 647–658 (1992).
[28]
Rafferty, J. B.et al. Crystal structure of DNA recombination protein RuvA and a model for its binding to the Holliday junction. Science 274, 415–420 (1996).
[29]
Lavery, R. & Sklenar, H. The definition of generalised helicoidal parameters and of axis curvature for irregular nucleic acids. J. Biomol. Struct. Dynam. 6, 63–91 (1988).
[30]
Hoess, R. H., Wierzbicki, A. & Abremski, K. The role of the loxP spacer region in P1 site-specific recombination. Nucleic Acids Res. 14, 2287–2300 (1986).
[31]
Stark, W. M., Sherratt, D. J. & Boocock, M. R. Site-specific recombination by Tn3 resolvase: topological changes in the forward and reverse reactions. Cell 58, 779–790 (1989).
[32]
Kitts, P. A. & Nash, H. A. Homology-dependent interactions in phage lambda site-specific recombination. Nature 329, 346–348 (1987). 10.1038/329346a0
[33]
Nunes-Duby, S., Azaro, M. A. & Landy, A. Swapping DNA strands and sensing homology without branch migration in lambda site-specific recombination. Curr. Biol. 5, 139–148 (1995).
[34]
Arciszewska, L. K., Grainge, I. & Sherratt, D. J. Action of site-specific recombinases XerC and XerD on tethered Holliday junctions. EMBO J. 16, 3731–3743 (1997).
[35]
Azaro, M. A. & Landy, A. The isometric preference of Holliday junctions influences resolution bias by lambda integrase. EMBO J. 16, 3744–3755 (1997).
[36]
Stark, W. M. & Boocock, M. R. Gatecrashers at the catalytic party. Trends Genet. 11, 121–123 (1995).
[37]
Shaikh, A. C. & Sadowski, P. D. The Cre recombinase cleaves the lox site in trans. J. Biol. Chem. 272, 5695–5702 (1997).
[38]
Nunes-Duby, S.et al. Lambda integrase cleaves DNA in cis. EMBO J. 13, 4421–4430 (1994).
[39]
Arciszewska, L. K. & Sherratt, D. J. Xer site-specific recombination in vitro. EMBO J. 14, 2112–2120 (1995).
[40]
Blakely, G. W. & Sherratt, D. J. Cis and trans in site-specific recombination. Mol. Microbiol. 20, 233–238 (1996).
[41]
Qian, X. H., Inman, R. B. & Cox, M. M. Protein-based asymmetry and protein-protein interactions in FLP recombinase-mediated site-specific recombination. J. Biol. Chem. 265, 21779–21788 (1990).
[42]
Van Duyne, G. D., Ghosh, S., Maas, W. K. & Sigler, P. B. Structure of the oligomerization and L-arginine binding domain of the arginine repressor of Escherichia coli. J. Mol. Biol. 256, 377–391 (1996).
[43]
Otwinowski, Z. in CCP4 Proc.80-88 (Daresbury Laboratory, Warrington, UK, (1991)).
[44]
Abrahams, J. P. & Leslie, A. G. W. Methods used in the structure determination of bovine mitochontrial F1 ATPase. Acta Crystallogr. D 52, 30–42 (1996).
[45]
Rice, L. M. & Brunger, A. T. Torsion angle dynamics: reduced variable conformational sampling enhances crystallographic structure refinement. Prot. Struct. Funct. Genet. 19, 277–290 (1996).
[46]
Jones, T. A., Zou, J. Y., Cowan, S. W. & Kjeldgaard, M. Improved methods for building protein models in electron density maps and the location of errors in these models. Acta Crystallogr. A 47, 110–119 (1991).
[47]
Jiang, J. S. & Brunger, A. T. Protein hydration observed by X-ray diffraction: solvation properties of penicillopepsion and neuraminidase crystal structures. J. Mol. Biol. 243, 100–115 (1994).
[48]
Parkinson, G., Vojtechovsky, J., Clowney, L., Brunger, A. T. & Berman, H. New parameters for the refinement of nucleic acid-containing structures. Acta Crystallogr. D 52, 57–64 (1996).
[49]
Kraulis, P. MOLSCRIPT: a program to produce both detailed and schematic plots of protein structures. J. Appl. Crystallogr. 24, 946–950 (1991).
[50]
Carson, M. Ribbons 2.0. J. Appl. Crystallogr. 24, 958–961 (1991).
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494
Citations
50
References
Details
Published
Sep 01, 1997
Vol/Issue
389(6646)
Pages
40-46
License
View
Authors
F
Feng Guo

Tianjin University

D
Deshmukh N. Gopaul
G
Gregory D. Van Duyne
Cite This Article
Feng Guo, Deshmukh N. Gopaul, Gregory D. Van Duyne (1997). Structure of Cre recombinase complexed with DNA in a site-specific recombination synapse. Nature, 389(6646), 40-46. https://doi.org/10.1038/37925
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