Biological Assembly 1  

 3D View: Structure | Electron Density

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Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 12528.37 
• Atom Count: 737 
• Residue Count: 108 
• Unique protein chains: 1

3JU0

Structure of the arm-type binding domain of HAI7 integrase

• DOI: 10.2210/pdb3JU0/pdb

• Classification: DNA BINDING PROTEIN
• Organism(s): Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672)
• Expression System: Escherichia coli


• Deposited: 2009-09-14 Released: 2009-10-06 
• Deposition Author(s): Szwagierczak, A., Antonenka, U., Popowicz, G.M., Sitar, T., Holak, T.A., Rakin, A.

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Experimental Data Snapshot

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

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

• PubMed: 19737930 
• DOI: 10.1074/jbc.M109.059261
• Primary Citation of Related Structures:  
  3JTZ


• 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 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.

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Organizational Affiliation: 

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

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Phage integrase	A	108	Pectobacterium 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 = 52.530	α = 90.00
b = 52.530	β = 90.00
c = 79.470	γ = 120.00

Software Package:

Software Name	Purpose
REFMAC	refinement
XSCALE	data scaling
MAR345	data collection
MOLREP	phasing
XDS	data reduction

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2009-09-14 
• Released Date: 2009-10-06 
• Deposition Author(s): Szwagierczak, A., Antonenka, U., Popowicz, G.M., Sitar, T., Holak, T.A., Rakin, A.

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