P2 Integrase catalytic domain in space group P21

Experimental Data Snapshot

  • Resolution: 2.50 Å
  • R-Value Free: 0.275 
  • R-Value Work: 0.230 
  • R-Value Observed: 0.232 

wwPDB Validation   3D Report Full Report

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Crystal structure of the bacteriophage P2 integrase catalytic domain.

Skaar, K.Claesson, M.Odegrip, R.Hogbom, M.Haggard-Ljungquist, E.Stenmark, P.

(2015) FEBS Lett 589: 3556-3563

  • DOI: https://doi.org/10.1016/j.febslet.2015.09.026
  • Primary Citation of Related Structures:  
    5C6K, 5DOR

  • PubMed Abstract: 

    Bacteriophage P2 is a temperate phage capable of integrating its DNA into the host genome by site-specific recombination upon lysogenization. Integration and excision of the phage genome requires P2 integrase, which performs recognition, cleavage and joining of DNA during these processes. This work presents the high-resolution crystal structure of the catalytic domain of P2 integrase, and analysis of the structure-function relationship of several previously identified non-functional P2 integrase mutants. The DNA binding area is characterized by a large positively charged patch, harboring key residues. The structure reveals potential for large dimer flexibility, likely essential for rearrangement of DNA strands upon integration and excision of the phage DNA.

  • Organizational Affiliation

    Department of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
A, B, C, D
176Peduovirus P2Mutation(s): 0 
Gene Names: int
Find proteins for P36932 (Escherichia phage P2)
Explore P36932 
Go to UniProtKB:  P36932
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP36932
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.50 Å
  • R-Value Free: 0.275 
  • R-Value Work: 0.230 
  • R-Value Observed: 0.232 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 64.11α = 90
b = 92.225β = 96.34
c = 64.937γ = 90
Software Package:
Software NamePurpose
XDSdata reduction
Aimlessdata scaling

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Swedish Research CouncilSweden2010-5200, 2014-5667
Wenner-Gren FoundationSweden--
Carl Tryggers FoundationSweden--

Revision History  (Full details and data files)

  • Version 1.0: 2015-12-02
    Type: Initial release
  • Version 1.1: 2024-01-10
    Changes: Data collection, Database references, Refinement description