5ZUT | pdb_00005zut

Crystal Structure of Yeast PCNA in Complex with N24 Peptide

• PDB DOI: https://doi.org/10.2210/pdb5ZUT/pdb

• Classification: CELL CYCLE
• Organism(s): Saccharomyces cerevisiae S288C, Homo sapiens
• Expression System: Escherichia coli K-12, unidentified
• Mutation(s): No 


• Deposited: 2018-05-08 Released: 2018-05-30 
• Deposition Author(s): Cheng, X.Y., Kuang, X.L., Zhou, Y., Xia, X.M., SU, Z.D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.82 Å
• R-Value Free: 
  0.397 (Depositor), 0.369 (DCC) 
• R-Value Work: 
  0.326 (Depositor), 0.316 (DCC) 
• R-Value Observed: 
  0.330 (Depositor) 

Starting Models: experimental

Literature

Crystal Structure of Yeast PCNA in Complex with N24 Peptide

Cheng, X.Y., Kuang, X.L., Zhou, Y., Xia, X.M., SU, Z.D.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Macromolecule Content 

• Total Structure Weight: 34.78 kDa 
• Atom Count: 2,155 
• Modeled Residue Count: 273 
• Deposited Residue Count: 307 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Proliferating cell nuclear antigen	A	289	Saccharomyces cerevisiae S288C	Mutation(s): 0  Gene Names: POL30, YBR088C, YBR0811
UniProt
Find proteins for P15873 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P15873  Go to UniProtKB:  P15873

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
N24	B [auth E]	18	Homo sapiens	Mutation(s): 0  Gene Names: PIK3R3
UniProt & NIH Common Fund Data Resources
Find proteins for Q5T4P3 (Homo sapiens) Explore Q5T4P3  Go to UniProtKB:  Q5T4P3
GTEx:  ENSG00000117461

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.82 Å
• R-Value Free:  0.397 (Depositor), 0.369 (DCC) 
• R-Value Work:  0.326 (Depositor), 0.316 (DCC) 
• R-Value Observed: 0.330 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 80.35	α = 90
b = 84.03	β = 93.62
c = 58.15	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data collection
PDB_EXTRACT	data extraction
XDS	data reduction
Aimless	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2018-05-30 
Deposition Author(s): Cheng, X.Y., Kuang, X.L., Zhou, Y., Xia, X.M., SU, Z.D.

Revision History  

• Version 1.0: 2018-05-30
  Type: Initial release
  
• Version 1.1: 2023-11-22
  Changes: Data collection, Database references, Refinement description
• Version 1.2: 2024-06-05
  Changes: Data collection