Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 83.89 kDa 
• Atom Count: 5943 
• Modelled Residue Count: 743 
• Deposited Residue Count: 756 
• Unique protein chains: 1

2AVT

Crystal structure of the beta subunit from DNA polymerase of Streptococcus pyogenes

• PDB DOI: 10.2210/pdb2AVT/pdb

• Classification: TRANSFERASE
• Organism(s): Streptococcus pyogenes
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2005-08-30 Released: 2006-01-24 
• Deposition Author(s): Argiriadi, M.A., Goedken, E.R., Bruck, I., O'donnell, M., Kuriyan, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.284 
• R-Value Work: 0.245 

Literature

Crystal structure of a DNA polymerase sliding clamp from a Gram-positive bacterium.

Argiriadi, M.A., Goedken, E.R., Bruck, I., O'donnell, M., Kuriyan, J.

(2006) BMC Struct Biol 6: 2-2

• PubMed: 16403212 
• DOI: 10.1186/1472-6807-6-2
• Primary Citation of Related Structures:  
  2AVT


• PubMed Abstract: 
  

Sliding DNA clamps are processivity factors that are required for efficient DNA replication. DNA polymerases maintain proximity to nucleic acid templates by interacting with sliding clamps that encircle DNA and thereby link the polymerase enzyme to the DNA substrate. Although the structures of sliding clamps from Gram-negative bacteria (E. coli), eukaryotes, archaea, and T4-like bacteriophages are well-known, the structure of a sliding clamp from Gram-positive bacteria has not been reported previously.

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Organizational Affiliation: 

Howard Hughes Medical Institute, The Rockefeller University, New York, NY 10021, USA. [e-mail]

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA polymerase III beta subunit	A, B	378	Streptococcus pyogenes	Mutation(s): 0  Gene Names: dnaN EC: 2.7.7
UniProt
Find proteins for Q9EVR1 (Streptococcus pyogenes) Explore Q9EVR1  Go to UniProtKB:  Q9EVR1

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.284 
• R-Value Work: 0.245 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 79.036	α = 90
b = 74.666	β = 118.57
c = 82.779	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
SCALEPACK	data scaling
CNS	refinement
HKL-2000	data reduction
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2005-08-30 
• Released Date: 2006-01-24 
Deposition Author(s): Argiriadi, M.A., Goedken, E.R., Bruck, I., O'donnell, M., Kuriyan, J.

Revision History  

• Version 1.0: 2006-01-24
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance