Biological Assembly 1  

 3D View: Structure | Electron Density

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Protein Workshop | Ligand Explorer

Global Symmetry: Cyclic - C3  (3D View)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

 3D View: Structure | Electron Density

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Protein Workshop | Ligand Explorer

Global Symmetry: Tetrahedral - T  (3D View)
Global Stoichiometry: Homo 12-mer - A12 

Biological assembly 2 generated by PISA,PQS (software)

Macromolecule Content

• Total Structure Weight: 27301.52 
• Atom Count: 1906 
• Residue Count: 245 
• Unique protein chains: 1

1RWZ

Crystal Structure of Proliferating Cell Nuclear Antigen (PCNA) from A. fulgidus

• DOI: 10.2210/pdb1RWZ/pdb

• Classification: REPLICATION
• Organism(s): Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)
• Expression System: Escherichia coli BL21(DE3)


• Deposited: 2003-12-17 Released: 2004-01-27 
• Deposition Author(s): Chapados, B.R., Hosfield, D.J., Han, S., Qiu, J., Yelent, B., Shen, B., Tainer, J.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.8 Å
• R-Value Free: 0.238 
• R-Value Work: 0.219 

Literature

Structural Basis for FEN-1 Substrate Specificity and PCNA-Mediated Activation in DNA Replication and Repair

Chapados, B.R., Hosfield, D.J., Han, S., Qiu, J., Yelent, B., Shen, B., Tainer, J.A.

(2004) Cell 116: 39-50

• PubMed: 14718165 
• Primary Citation of Related Structures:  
  1RXZ, 1RXW, 1RXV, 1RXM


• PubMed Abstract: 
  

Flap EndoNuclease-1 (FEN-1) and the processivity factor proliferating cell nuclear antigen (PCNA) are central to DNA replication and repair. To clarify the molecular basis of FEN-1 specificity and PCNA activation, we report here structures of FEN-1:DNA and PCNA:FEN-1-peptide complexes, along with fluorescence resonance energy transfer (FRET) and mutational results. FEN-1 binds the unpaired 3' DNA end (3' flap), opens and kinks the DNA, and promotes conformational closing of a flexible helical clamp to facilitate 5' cleavage specificity. Ordering of unstructured C-terminal regions in FEN-1 and PCNA creates an intermolecular beta sheet interface that directly links adjacent PCNA and DNA binding regions of FEN-1 and suggests how PCNA stimulates FEN-1 activity. The DNA and protein conformational changes, composite complex structures, FRET, and mutational results support enzyme-PCNA alignments and a kinked DNA pivot point that appear suitable to coordinate rotary handoffs of kinked DNA intermediates among enzymes localized by the three PCNA binding sites.

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Organizational Affiliation: 

Department of Molecular Biology and Skaggs Institute for Chemical Biology, The Scripps Research Institute, La Jolla, CA 92122, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
DNA polymerase sliding clamp	A	245	Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)	Mutation(s): 0  Gene Names: pcn
Find proteins for O29912 (Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)) Go to UniProtKB:  O29912

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.8 Å
• R-Value Free: 0.238 
• R-Value Work: 0.219 
• Space Group: F 4₁ 3 2

Unit Cell:

Length (Å)	Angle (°)
a = 244.355	α = 90.00
b = 244.355	β = 90.00
c = 244.355	γ = 90.00

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2003-12-17 
• Released Date: 2004-01-27 
• Deposition Author(s): Chapados, B.R., Hosfield, D.J., Han, S., Qiu, J., Yelent, B., Shen, B., Tainer, J.A.

Revision History 

• Version 1.0: 2004-01-27
  Type: Initial release
• Version 1.1: 2008-04-29
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Derived calculations, Version format compliance