Biological Assembly 1  

 3D View: Structure | Ligand Interaction

Standalone Viewers  
Protein Workshop | Ligand Explorer

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 37045.89 
• Atom Count: 2513 
• Residue Count: 334 
• Unique protein chains: 1

1A5T

CRYSTAL STRUCTURE OF THE DELTA PRIME SUBUNIT OF THE CLAMP-LOADER COMPLEX OF ESCHERICHIA COLI DNA POLYMERASE III

• DOI: 10.2210/pdb1A5T/pdb

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


• Deposited: 1998-02-18 Released: 1998-05-27 
• Deposition Author(s): Guenther, B., Onrust, R., Sali, A., O'Donnell, M., Kuriyan, J.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.2 Å
• R-Value Free: 0.265 
• R-Value Work: 0.205 

Literature

Crystal structure of the delta' subunit of the clamp-loader complex of E. coli DNA polymerase III.

Guenther, B., Onrust, R., Sali, A., O'Donnell, M., Kuriyan, J.

(1997) Cell 91: 335-345

• PubMed: 9363942 


• PubMed Abstract: 
  

The crystal structure of the delta' subunit of the clamp-loader complex of E. coli DNA polymerase III has been determined. Three consecutive domains in the structure are arranged in a C-shaped architecture. The N-terminal domain contains a nonfunctional nucleotide binding site. The catalytic component of the clamp-loader complex is the gamma subunit, which is homologous to delta'. A sequence-structure alignment suggests that nucleotides bind to gamma at an interdomain interface within the inner surface of the "C." The alignment is extended to other clamp-loader complexes and to the RuvB family of DNA helicases, and suggests that each of these is assembled from C-shaped components that can open and close the jaws of the "C" in response to ATP binding and hydrolysis.

---

Related Citations: 

• Structural Studies on the DNA Replication Apparatus: X-Ray Crystal Structure of the Delta-Prime Subunit of Escherichia Coli DNA Polymerase III
  Guenther, B.D.
  (1996) Thesis, The Rockefeller University --: --




---

Organizational Affiliation: 

The Rockefeller University, New York, New York 10021, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
DELTA PRIME	A	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 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
ZN	A	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.2 Å
• R-Value Free: 0.265 
• R-Value Work: 0.205 
• Space Group: C 2 2 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 98.900	α = 90.00
b = 104.000	β = 90.00
c = 75.600	γ = 90.00

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
X-PLOR	phasing
DENZO	data reduction
X-PLOR	model building
X-PLOR	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1998-02-18 
• Released Date: 1998-05-27 
• Deposition Author(s): Guenther, B., Onrust, R., Sali, A., O'Donnell, M., Kuriyan, J.

Revision History 

• Version 1.0: 1998-05-27
  Type: Initial release
• Version 1.1: 2008-03-24
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance