1ISQ

Pyrococcus furiosus PCNA complexed with RFCL PIP-box peptide

• PDB DOI: https://doi.org/10.2210/pdb1ISQ/pdb

• Classification: DNA BINDING PROTEIN
• Organism(s): Pyrococcus furiosus, Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2001-12-19 Released: 2002-10-23 
• Deposition Author(s): Matsumiya, S., Ishino, S., Ishino, Y., Morikawa, K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.291 
• R-Value Work: 0.235 

Literature

Physical interaction between proliferating cell nuclear antigen and replication factor C from Pyrococcus furiosus

Matsumiya, S., Ishino, S., Ishino, Y., Morikawa, K.

(2002) Genes Cells 7: 911-922

• PubMed: 12296822 
• DOI: https://doi.org/10.1046/j.1365-2443.2002.00572.x
• Primary Citation of Related Structures:  
  1ISQ


• PubMed Abstract: 
  

  Proliferating cell nuclear antigen (PCNA), which is recognized as a DNA polymerase processivity factor, has direct interactions with various proteins involved in the important genetic information processes in Eukarya. We determined the crystal structure of PCNA from the hyperthermophilic archaeon, Pyrococcus furiosus (PfuPCNA) at 2.1 A resolution, and found that the toroidal ring-shaped structure, which consists of homotrimeric molecules, is highly conserved between the Eukarya and Archaea. This allowed us to examine its interaction with the loading factor at the atomic level.

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Organizational Affiliation: 

Department of Structural Biology, Biomolecular Engineering Research Institute, 6-2-3, Furuedai, Suita, Osaka 565-0874, Japan.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Hetero 6-mer - A3B3 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 6-mer - A3B1C1D1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 29.39 kDa 
• Atom Count: 1,991 
• Modelled Residue Count: 249 
• Deposited Residue Count: 261 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Proliferating Cell Nuclear Antigen	A	249	Pyrococcus furiosus	Mutation(s): 1
UniProt
Find proteins for O73947 (Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)) Explore O73947  Go to UniProtKB:  O73947

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
replication factor C large subunit	B	12	N/A	Mutation(s): 0
UniProt
Find proteins for Q9UWR2 (Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)) Explore Q9UWR2  Go to UniProtKB:  Q9UWR2

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.291 
• R-Value Work: 0.235 
• Space Group: P 6₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 91.847	α = 90
b = 91.847	β = 90
c = 64.144	γ = 120

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2002-10-23 
Deposition Author(s): Matsumiya, S., Ishino, S., Ishino, Y., Morikawa, K.

Revision History  

• Version 1.0: 2002-10-23
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2021-11-10
  Changes: Database references, Derived calculations
• Version 1.4: 2023-10-25
  Changes: Data collection, Refinement description