5AUJ | pdb_00005auj

Pyrococcus furiosus proliferating cell nuclear antigen (PCNA) SeMet derivative

• PDB DOI: https://doi.org/10.2210/pdb5AUJ/pdb

• Classification: DNA BINDING PROTEIN
• Organism(s): Pyrococcus furiosus DSM 3638
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2015-04-21 Released: 2016-04-27 
• Deposition Author(s): Watanabe, Y., Oyama, T.
• Funding Organization(s): Ministry of Education, Culture, Sports, Science and Technology

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 
  0.273 (Depositor), 0.280 (DCC) 
• R-Value Work: 
  0.218 (Depositor), 0.230 (DCC) 
• R-Value Observed: 
  0.220 (Depositor) 

Literature

Pyrococcus furiosus proliferating cell nuclear antigen (PCNA) SeMet derivative

Watanabe, Y., Oyama, T.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 28.44 kDa 
• Atom Count: 1,871 
• Modeled Residue Count: 239 
• Deposited Residue Count: 249 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA polymerase sliding clamp	A	249	Pyrococcus furiosus DSM 3638	Mutation(s): 1  Gene Names: pcn, PF0983
UniProt
Find proteins for O73947 (Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)) Explore O73947  Go to UniProtKB:  O73947

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free:  0.273 (Depositor), 0.280 (DCC) 
• R-Value Work:  0.218 (Depositor), 0.230 (DCC) 
• R-Value Observed: 0.220 (Depositor) 

Space Group: P 6₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 88.545	α = 90
b = 88.545	β = 90
c = 62.726	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2016-04-27 
Deposition Author(s): Watanabe, Y., Oyama, T.

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Funding Organization	Location	Grant Number
Ministry of Education, Culture, Sports, Science and Technology	Japan	26440023

Revision History  

• Version 1.0: 2016-04-27
  Type: Initial release
  
• Version 1.1: 2020-02-19
  Changes: Data collection, Database references, Derived calculations
• Version 1.2: 2024-11-20
  Changes: Data collection, Database references, Structure summary