Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 5-mer - A3BC Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 5-mer -A4B 

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

Macromolecule Content

• Total Structure Weight: 200808.45 
• Atom Count: 13845 
• Residue Count: 1796 
• Unique protein chains: 3

1JR3

Crystal Structure of the Processivity Clamp Loader Gamma Complex of E. coli DNA Polymerase III

• DOI: 10.2210/pdb1JR3/pdb

• Classification: TRANSFERASE
• Organism(s): Escherichia coli (strain K12)
• Expression System: Escherichia coli


• Deposited: 2001-08-10 Released: 2001-09-26 
• Deposition Author(s): Jeruzalmi, D., O'Donnell, M., Kuriyan, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.7 Å
• R-Value Free: 0.304 
• R-Value Work: 0.268 

Literature

Crystal structure of the processivity clamp loader gamma (gamma) complex of E. coli DNA polymerase III.

Jeruzalmi, D., O'Donnell, M., Kuriyan, J.

(2001) Cell 106: 429-441

• PubMed: 11525729 


• PubMed Abstract: 
  

The gamma complex, an AAA+ ATPase, is the bacterial homolog of eukaryotic replication factor C (RFC) that loads the sliding clamp (beta, homologous to PCNA) onto DNA. The 2.7/3.0 A crystal structure of gamma complex reveals a pentameric arrangement of subunits, with stoichiometry delta':gamma(3):delta. The C-terminal domains of the subunits form a circular collar that supports an asymmetric arrangement of the N-terminal ATP binding domains of the gamma motor and the structurally related domains of the delta' stator and the delta wrench. The structure suggests a mechanism by which the gamma complex switches between a closed state, in which the beta-interacting element of delta is hidden by delta', and an open form similar to the crystal structure, in which delta is free to bind to beta.

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Organizational Affiliation: 

Howard Hughes Medical Institute, The Rockefeller University, 1230 York Avenue, New York, NY 10021, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
DNA polymerase III subunit gamma	A, B, C	373	Escherichia coli (strain K12)	Mutation(s): 0  Gene Names: dnaX (dnaZ, dnaZX) EC: 2.7.7.7
Find proteins for P06710 (Escherichia coli (strain K12)) Go to UniProtKB:  P06710

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
DNA polymerase III, delta subunit	D	343	Escherichia coli (strain K12)	Mutation(s): 0  Gene Names: holA EC: 2.7.7.7
Find proteins for P28630 (Escherichia coli (strain K12)) Go to UniProtKB:  P28630

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details
DNA polymerase III, delta' subunit	E	334	Escherichia coli (strain K12)	Mutation(s): 0  Gene Names: holB EC: 2.7.7.7
Find proteins for P28631 (Escherichia coli (strain K12)) Go to UniProtKB:  P28631

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
ZN	A, B, C, E	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
SO4	A, B, C	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.7 Å
• R-Value Free: 0.304 
• R-Value Work: 0.268 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 95.698	α = 90.00
b = 95.857	β = 90.00
c = 285.410	γ = 90.00

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
CNS	refinement
MLPHARE	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2001-08-10 
• Released Date: 2001-09-26 
• Deposition Author(s): Jeruzalmi, D., O'Donnell, M., Kuriyan, J.

Revision History 

• Version 1.0: 2001-09-26
  Type: Initial release
• Version 1.1: 2008-04-27
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance
• Version 1.3: 2018-01-31
  Type: Experimental preparation