A motif in the C-terminal domain of ϕC31 integrase controls the directionality of recombination

Paul A. Rowley, Matthew C. A. Smith, Ellen Younger, Margaret C. M. Smith

Research output: Contribution to journalArticle

46 Citations (Scopus)

Abstract

Bacteriophage phi C31 encodes an integrase, which acts on the phage and host attachment sites, attP and attB, to form an integrated prophage flanked by attL and attR. In the absence of accessory factors, phi C31 integrase cannot catalyse attL x attR recombination to excise the prophage. To understand the mechanism of directionality, mutant integrases were characterized that were active in excision. A hyperactive integrase, Int E449K, gained the ability to catalyse attL x attR, attL x attL and attR x attR recombination whilst retaining the ability to recombine attP x attB. A catalytically defective derivative of this mutant, Int S12A, E449K, could form stable complexes with attP/attB, attL/attR, attL/attL and attR/attR under conditions where Int S12A only complexed with attP/attB. Further analysis of the Int E449K-attL/attR synaptic events revealed a preference for one of the two predicted synapse structures with different orientations of the attL/attR sites. Several amino acid substitutions conferring hyperactivity, including E449K, were localized to one face of a predicted coiled-coil motif in the C-terminal domain. This work shows that a motif in the C-terminal domain of phi C31 integrase controls the formation of the synaptic interface in both integration and excision, possibly through a direct role in protein-protein interactions.

Original languageEnglish
Pages (from-to)3879-3891
Number of pages13
JournalNucleic Acids Research
Volume36
Issue number12
Early online date23 May 2008
DOIs
Publication statusPublished - Jul 2008

Keywords

  • site-specific recombination
  • gamma-delta-resolvase
  • central dinucleotide
  • genomic integration
  • BXB1 integration
  • phage phi-C31
  • DNA cleavage
  • excision
  • system
  • gene

Cite this

A motif in the C-terminal domain of ϕC31 integrase controls the directionality of recombination. / Rowley, Paul A.; Smith, Matthew C. A.; Younger, Ellen; Smith, Margaret C. M.

In: Nucleic Acids Research, Vol. 36, No. 12, 07.2008, p. 3879-3891.

Research output: Contribution to journalArticle

Rowley, Paul A. ; Smith, Matthew C. A. ; Younger, Ellen ; Smith, Margaret C. M. / A motif in the C-terminal domain of ϕC31 integrase controls the directionality of recombination. In: Nucleic Acids Research. 2008 ; Vol. 36, No. 12. pp. 3879-3891.
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N2 - Bacteriophage phi C31 encodes an integrase, which acts on the phage and host attachment sites, attP and attB, to form an integrated prophage flanked by attL and attR. In the absence of accessory factors, phi C31 integrase cannot catalyse attL x attR recombination to excise the prophage. To understand the mechanism of directionality, mutant integrases were characterized that were active in excision. A hyperactive integrase, Int E449K, gained the ability to catalyse attL x attR, attL x attL and attR x attR recombination whilst retaining the ability to recombine attP x attB. A catalytically defective derivative of this mutant, Int S12A, E449K, could form stable complexes with attP/attB, attL/attR, attL/attL and attR/attR under conditions where Int S12A only complexed with attP/attB. Further analysis of the Int E449K-attL/attR synaptic events revealed a preference for one of the two predicted synapse structures with different orientations of the attL/attR sites. Several amino acid substitutions conferring hyperactivity, including E449K, were localized to one face of a predicted coiled-coil motif in the C-terminal domain. This work shows that a motif in the C-terminal domain of phi C31 integrase controls the formation of the synaptic interface in both integration and excision, possibly through a direct role in protein-protein interactions.

AB - Bacteriophage phi C31 encodes an integrase, which acts on the phage and host attachment sites, attP and attB, to form an integrated prophage flanked by attL and attR. In the absence of accessory factors, phi C31 integrase cannot catalyse attL x attR recombination to excise the prophage. To understand the mechanism of directionality, mutant integrases were characterized that were active in excision. A hyperactive integrase, Int E449K, gained the ability to catalyse attL x attR, attL x attL and attR x attR recombination whilst retaining the ability to recombine attP x attB. A catalytically defective derivative of this mutant, Int S12A, E449K, could form stable complexes with attP/attB, attL/attR, attL/attL and attR/attR under conditions where Int S12A only complexed with attP/attB. Further analysis of the Int E449K-attL/attR synaptic events revealed a preference for one of the two predicted synapse structures with different orientations of the attL/attR sites. Several amino acid substitutions conferring hyperactivity, including E449K, were localized to one face of a predicted coiled-coil motif in the C-terminal domain. This work shows that a motif in the C-terminal domain of phi C31 integrase controls the formation of the synaptic interface in both integration and excision, possibly through a direct role in protein-protein interactions.

KW - site-specific recombination

KW - gamma-delta-resolvase

KW - central dinucleotide

KW - genomic integration

KW - BXB1 integration

KW - phage phi-C31

KW - DNA cleavage

KW - excision

KW - system

KW - gene

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DO - 10.1093/nar/gkn269

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JO - Nucleic Acids Research

JF - Nucleic Acids Research

SN - 0305-1048

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