2ZVV

Crystal structure of Proliferating cellular nuclear antigen 1 and Short peptide from human P21


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.232 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Crystal structures of the Arabidopsis thaliana proliferating cell nuclear antigen 1 and 2 proteins complexed with the human p21 C-terminal segment

Strzalka, W.Oyama, T.Tori, K.Morikawa, K.

(2009) Protein Sci. 18: 1072-1080

  • DOI: 10.1002/pro.117
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The proliferating cell nuclear antigen (PCNA) is well recognized as one of the essential cellular components of the DNA replication machinery in all eukaryotic organisms. Despite their prominent importance, very little biochemical and structural info ...

    The proliferating cell nuclear antigen (PCNA) is well recognized as one of the essential cellular components of the DNA replication machinery in all eukaryotic organisms. Despite their prominent importance, very little biochemical and structural information about plant PCNAs is available, in comparison with that obtained from other eukaryotic organisms. We have determined the atomic resolution crystal structures of the two distinct Arabidopsis thaliana PCNAs (AtPCNA), both complexed with the C-terminal segment of human p21. Both AtPCNAs form homotrimeric ring structures, which are essentially identical to each other, including the major contacts with the p21 peptide. The structure of the amino-terminal half of the p21 peptide, containing the typical PIP box sequence, is remarkably similar to those observed in the previously reported crystal structures of the human and archaeal PCNA-PIP box complexes. Meanwhile, the carboxy-terminal halves of the p21 peptide in the plant PCNA complexes are bound to the protein in a unique manner, most probably because of crystal packing effects. A surface plasmon resonance analysis revealed high affinity between each AtPCNA and the C-terminal fragment of human p21. This result strongly suggests that the interaction is functionally significant, although no plant homologs of p21 have been identified yet. We also discovered that AtPCNA1 and AtPCNA2 form heterotrimers, implying that hetero-PCNA rings may play critical roles in cellular signal transduction, particularly in DNA repair.


    Organizational Affiliation

    Department of Molecular Genetics, Faculty of Biochemistry, Biophysics and Biotechnology, Jagiellonian University, 30-387 Krakow, Poland.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Proliferating cellular nuclear antigen 1
A, B
276Arabidopsis thalianaMutation(s): 0 
Gene Names: PCNA (PCNA1)
Find proteins for Q9M7Q7 (Arabidopsis thaliana)
Go to Gene View: PCNA
Go to UniProtKB:  Q9M7Q7
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Cyclin-dependent kinase inhibitor 1
Y, X
22Homo sapiensMutation(s): 0 
Gene Names: CDKN1A (CAP20, CDKN1, CIP1, MDA6, PIC1, SDI1, WAF1)
Find proteins for P38936 (Homo sapiens)
Go to Gene View: CDKN1A
Go to UniProtKB:  P38936
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A, B
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.232 
  • Space Group: H 3 2
Unit Cell:
Length (Å)Angle (°)
a = 111.010α = 90.00
b = 111.010β = 90.00
c = 403.903γ = 120.00
Software Package:
Software NamePurpose
HKL-2000data collection
HKL-2000data reduction
CNSphasing
HKL-2000data scaling
CNSrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2009-06-02
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance