3JU0

Structure of the arm-type binding domain of HAI7 integrase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.212 
  • R-Value Work: 0.148 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Structures of the arm-type binding domains of HPI and HAI7 integrases

Szwagierczak, A.Antonenka, U.Popowicz, G.M.Sitar, T.Holak, T.A.Rakin, A.

(2009) J.Biol.Chem. 284: 31664-31671

  • DOI: 10.1074/jbc.M109.059261
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The structures of the N-terminal domains of two integrases of closely related but not identical asn tDNA-associated genomic islands, Yersinia HPI (high pathogenicity island; encoding siderophore yersiniabactin biosynthesis and transport) and an Erwin ...

    The structures of the N-terminal domains of two integrases of closely related but not identical asn tDNA-associated genomic islands, Yersinia HPI (high pathogenicity island; encoding siderophore yersiniabactin biosynthesis and transport) and an Erwinia carotovora genomic island with yet unknown function, HAI7, have been resolved. Both integrases utilize a novel four-stranded beta-sheet DNA-binding motif, in contrast to the known proteins that bind their DNA targets by means of three-stranded beta-sheets. Moreover, the beta-sheets in Int(HPI) and Int(HAI7) are longer than those in other integrases, and the structured helical N terminus is positioned perpendicularly to the large C-terminal helix. These differences strongly support the proposal that the integrases of the genomic islands make up a distinct evolutionary branch of the site-specific recombinases that utilize a unique DNA-binding mechanism.


    Organizational Affiliation

    Max Planck Institute for Biochemistry, D-82152 Martinsried, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Phage integrase
A
108Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672)Mutation(s): 0 
Gene Names: intB
Find proteins for Q6D6K1 (Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672))
Go to UniProtKB:  Q6D6K1
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.212 
  • R-Value Work: 0.148 
  • Space Group: P 65
Unit Cell:
Length (Å)Angle (°)
a = 52.530α = 90.00
b = 52.530β = 90.00
c = 79.470γ = 120.00
Software Package:
Software NamePurpose
REFMACrefinement
XSCALEdata scaling
MAR345data collection
MOLREPphasing
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2009-10-06
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2013-01-16
    Type: Database references
  • Version 1.3: 2017-11-01
    Type: Refinement description