Zinc is essential for high-affinity DNA binding and recombinase activity of ρc31 integrase

Nucleic Acids Research

Volumn 39, Issue 14, 2011, Pages 6137-6147

  McEwan, Andrew R ^a   Raab, Andrea ^b   Kelly, Sharon M ^c   Feldmann, Jörg ^b   Smith, Margaret C M ^a  

^a UNIVERSITY OF ABERDEEN   (United Kingdom)

^b UNIVERSITY OF ABERDEEN   (United Kingdom)

^c UNIVERSITY OF GLASGOW   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

CYSTEINE; INTEGRASE; INTEGRASE YC31; PROTEINASE; RECOMBINASE; UNCLASSIFIED DRUG; ZINC ION;

ARTICLE; BINDING AFFINITY; CIRCULAR DICHROISM; DNA BINDING; ENZYME ACTIVITY; ESCHERICHIA COLI; GENE MUTATION; NONHUMAN; PRIORITY JOURNAL; PROTEIN DOMAIN; PROTEIN EXPRESSION; PROTEIN FOLDING; PROTEIN MOTIF;

AMINO ACID SEQUENCE; AMINO ACID SUBSTITUTION; ATTACHMENT SITES, MICROBIOLOGICAL; CHELATING AGENTS; CIRCULAR DICHROISM; CYSTEINE; DNA-BINDING PROTEINS; EDETIC ACID; INTEGRASES; MOLECULAR SEQUENCE DATA; PROTEIN BINDING; PROTEIN STABILITY; PROTEIN STRUCTURE, SECONDARY; RECOMBINATION, GENETIC; SEQUENCE ALIGNMENT; SEQUENCE DELETION; SIPHOVIRIDAE; VIRAL PROTEINS; ZINC; ZINC FINGERS;

EID: 80051746582     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkr220     Document Type: Article

References (29)

1. Smith, M.C.M., Brown, W.R., McEwan, A.R. and Rowley, P.A. (2010) Site-specific recombination by fC31 integrase and other large serine recombinases. Biochem. Soc. Trans., 38, 388-394.
2. Grindley, N.D.F., Whiteson, K.L. and Rice, P.A. (2006) Mechanisms of site-specific recombination. Ann. Rev. Biochem., 75, 567-605. (Pubitemid 44118044)
3. Smith, M.C.M. and Thorpe, H.M. (2002) Diversity in the serine recombinases. Mol. Microbiol., 44, 299-307. (Pubitemid 34429737)
4. Yuan, P., Gupta, K. and Van Duyne, G.D. (2008) Tetrameric structure of a serine integrase catalytic domain. Structure, 16, 1275-1286.
5. Sanderson, M.R., Freemont, P.S., Rice, P.A., Goldman, A., Hatfull, G.F., Grindley, N.D.F. and Steitz, T.A. (1990) The crystal structure of the catalytic domain of the site-specific recombination enzyme gamma delta resolvase at 2.7 A resolution. Cell, 63, 1323-1329. (Pubitemid 120035080)
6. Ghosh, P., Kim, A.I. and Hatfull, G.F. (2003) The orientation of mycobacteriophage Bxb1 integration is solely dependent on the central dinucleotide of attP and attB. Mol. Cell, 12, 1101-1111. (Pubitemid 37487921)
7. Ghosh, P., Pannunzio, N.R. and Hatfull, G.F. (2005) Synapsis in phage Bxb1 integration: selection mechanism for the correct pair of recombination sites. J. Mol. Biol., 349, 331-348. (Pubitemid 40693753)
8. McEwan, A.R., Rowley, P.A. and Smith, M.C.M. (2009) DNA binding and synapsis by the large C-terminal domain of fC31 integrase. Nucleic Acids Res., 37, 4764-4773.
9. Rowley, P.A., Smith, M.C.A., Younger, E. and Smith, M.C.M. (2008) A motif in the C-terminal domain of fC31 integrase controls the directionality of recombination. Nucleic Acids Res., 36, 3879-3891. (Pubitemid 351984805)
10. Thorpe, H.M., Wilson, S.E. and Smith, M.C.M. (2000) Control of directionality in the site-specific recombination system of the Streptomyces phage fC31. Mol. Microbiol., 38, 232-241.
11. Kuhstoss, S. and Rao, R.N. (1991) Analysis of the integration function of the streptomycete bacteriophage fC31. J. Mol. Biol., 222, 897-908. (Pubitemid 121003478)
12. Combes, P., Till, R., Bee, S. and Smith, M.C.M. (2002) The streptomyces genome contains multiple pseudo-attB sites for the fC31-encoded site-specific recombination system. J. Bacteriol., 184, 5746-5752.
13. Thorpe, H.M. and Smith, M.C.M. (1998) In vitro site-specific integration of bacteriophage DNA catalyzed by a recombinase of the resolvase/invertase family. Proc. Natl Acad. Sci. USA, 95, 5505-5510.
14. Smith, M.C.A., Till, R., Brady, K., Soultanas, P., Thorpe, H. and Smith, M.C.M. (2004) Synapsis and DNA cleavage in fC31 integrase-mediated site-specific recombination. Nucleic Acids Res., 32, 2607-2617. (Pubitemid 38854814)
15. Gupta, M., Till, R. and Smith, M.C.M. (2007) Sequences in attB that affect the ability of fC31 integrase to synapse and to activate DNA cleavage. Nucleic Acids Res., 35, 3407-3419. (Pubitemid 47073603)
16. Krishna, S.S., Majumdar, I. and Grishin, N.V. (2003) Structural classification of zinc fingers: survey and summary. Nucleic Acids Res., 31, 532-550. (Pubitemid 36175942)
17. Liu, H. and Naismith, J.H. (2009) A simple and efficient expression and purification system using two newly constructed vectors. Protein expression and purification, 63, 102-111.
18. Gust, B., Kieser, T. and Chater, K.F. (2002) REDIRECT Technology: PCR-targeting System in Streptomyces coelicolor. John Innes Centre, Norwich.
19. Smith, M.C.A., Till, R. and Smith, M.C.M. (2004) Switching the polarity of a bacteriophage integration system. Mol. Microbiol., 51, 1719-1728. (Pubitemid 38406544)
20. Whitmore, L. and Wallace, B.A. (2004) DICHROWEB, an online server for protein secondary structure analyses from circular dichroism spectroscopic data. Nucleic Acids Res., 32, W668-W673. (Pubitemid 38997420)
21. Whitmore, L. and Wallace, B.A. (2008) Protein secondary structure analyses from circular dichroism spectroscopy: methods and reference databases. Biopolymers, 89, 392-400.
22. Gamsjaeger, R., Liew, C.K., Loughlin, F.E., Crossley, M. and Mackay, J.P. (2007) Sticky fingers: zinc-fingers as protein-recognition motifs. TIBS, 32, 63-70. (Pubitemid 46199196)
23. Nardelli, J., Gibson, T. and Charnay, P. (1992) Zinc finger-DNA recognition: analysis of base specificity by site-directed mutagenesis. Nucleic Acids Res., 20, 4137-4144.
24. Clouaire, T., Roussigne, M., Ecochard, V., Mathe, C., Amalric, F. and Girard, J.P. (2005) The THAP domain of THAP1 is a large C2CH module with zinc-dependent sequence-specific DNA-binding activity. Proc. Natl Acad. Sci. USA, 102, 6907-6912. (Pubitemid 40675415)
25. Luscombe, N.M., Laskowski, R.A. and Thornton, J.M. (2001) Amino acid-base interactions: a three-dimensional analysis of protein-DNA interactions at an atomic level. Nucleic Acids Res., 29, 2860-2874. (Pubitemid 32685051)
26. Rohs, R., Jin, X., West, S.M., Joshi, R., Honig, B. and Mann, R.S. (2010) Origins of specificity in protein-DNA recognition. Ann. Rev. Biochem., 79, 233-269.
27. Adams, V., Lucet, I.S., Tynan, F.E., Chiarezza, M., Howarth, P.M., Kim, J., Rossjohn, J., Lyras, D. and Rood, J.I. (2006) Two distinct regions of the large serine recombinase TnpX are required for DNA binding and biological function. Mol. Microbiol., 60, 591-601.
28. Calos, M.P. (2006) The fC31 integrase system for gene therapy. Curr. Gene Therapy, 6, 633-645. (Pubitemid 44890547)
29. Poirot, O., O'Toole, E. and Notredame, C. (2003) Tcoffee@igs: a web server for computing, evaluating and combining multiple sequence alignments. Nucleic Acids Res., 31, 3503-3506. (Pubitemid 37442186)