8F5Q

Crystal structure of human PCNA in complex with the PIP box of FBH1

• PDB DOI: https://doi.org/10.2210/pdb8F5Q/pdb

• Classification: DNA BINDING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2022-11-15 Released: 2023-09-27 
• Deposition Author(s): Liu, J., Chaves-Arquero, B., Wei, P., Tencer, H., Zhang, G., Blanco, F., Kutateladze, T.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.266 
• R-Value Work: 0.224 
• R-Value Observed: 0.225 

Literature

Molecular insight into the PCNA-binding mode of FBH1.

Liu, J., Chaves-Arquero, B., Wei, P., Tencer, A.H., Ruiz-Albor, A., Zhang, G., Blanco, F.J., Kutateladze, T.G.

(2023) Structure 31: 511-517.e3

• PubMed: 36990095 
• DOI: https://doi.org/10.1016/j.str.2023.03.004
• Primary Citation of Related Structures:  
  8F5Q


• PubMed Abstract: 
  

  F-box DNA helicase 1 (FBH1) is involved in the regulation of cell responses to replicative stress. FBH1 is recruited to stalled DNA replication fork by PCNA where it inhibits homologous recombination and catalyzes fork regression. Here, we report the structural basis for the molecular recognition of two distinctly different motifs of FBH1, FBH1 _PIP and FBH1 _APIM , by PCNA. The crystal structure of PCNA in complex with FBH1 _PIP and analysis of NMR perturbations reveal overlapped FBH1 _PIP and FBH1 _APIM binding sites of PCNA and the dominant contribution of FBH1 _PIP in this interaction.

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Organizational Affiliation: 

Department of Pharmacology, University of Colorado School of Medicine, Aurora, CO 80045, USA.

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.

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 89.34 kDa 
• Atom Count: 6,055 
• Modelled Residue Count: 746 
• Deposited Residue Count: 804 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Proliferating cell nuclear antigen	A, C, E	259	Homo sapiens	Mutation(s): 0  Gene Names: PCNA
UniProt & NIH Common Fund Data Resources
Find proteins for P12004 (Homo sapiens) Explore P12004  Go to UniProtKB:  P12004
PHAROS:  P12004 GTEx:  ENSG00000132646

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
F-box DNA helicase 1	B, D, F	9	Homo sapiens	Mutation(s): 0  EC: 3.6.4.12
UniProt & NIH Common Fund Data Resources
Find proteins for Q8NFZ0 (Homo sapiens) Explore Q8NFZ0  Go to UniProtKB:  Q8NFZ0
PHAROS:  Q8NFZ0 GTEx:  ENSG00000134452

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.266 
• R-Value Work: 0.224 
• R-Value Observed: 0.225 
• Space Group: I 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 81.95	α = 90
b = 82.21	β = 91.26
c = 118.558	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
iMOSFLM	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-09-27 
Deposition Author(s): Liu, J., Chaves-Arquero, B., Wei, P., Tencer, H., Zhang, G., Blanco, F., Kutateladze, T.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2023-09-27
  Type: Initial release