2ZVV Dna Binding Protein date Nov 21, 2008
title Crystal Structure Of Proliferating Cellular Nuclear Antigen And Short Peptide From Human P21
authors W.Strzalka, T.Oyama, K.Tori, K.Morikawa
compound source
Molecule: Proliferating Cellular Nuclear Antigen 1
Chain: A, B
Synonym: Pcna 1
Engineered: Yes
Organism_scientific: Arabidopsis Thaliana
Organism_common: Mouse-Ear Cress,Thale-Cress
Organism_taxid: 3702
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet15b

Molecule: Cyclin-Dependent Kinase Inhibitor 1
Chain: Y, X
Fragment: Unp Residues 139-160
Synonym: P21, Cdk-Interacting Protein 1, Melanoma Differentiation-Associated Protein 6, Mda-6;
Engineered: Yes

Synthetic: Yes
Other_details: A Synthetic Fragment 139-160 Of The Human P21waf1
symmetry Space Group: H 3 2
R_factor 0.232 R_Free 0.245
length a length b length c angle alpha angle beta angle gamma
111.010 111.010 403.903 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.00 Å
ligand SO4 enzyme
A, B

Primary referenceCrystal 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, Protein Sci. 2009 May;18(5):1072-80. PMID:19388052
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (94 Kb) [Save to disk]
  • Biological Unit Coordinates (2zvv.pdb1.gz) 132 Kb
  • Biological Unit Coordinates (2zvv.pdb2.gz) 134 Kb
  • LPC: Ligand-Protein Contacts for 2ZVV
  • CSU: Contacts of Structural Units for 2ZVV
  • Likely Quarternary Molecular Structure file(s) for 2ZVV
  • Structure Factors (805 Kb)
  • Retrieve 2ZVV in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2ZVV from S2C, [Save to disk]
  • Re-refined 2zvv structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2ZVV in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 2ZVV
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2ZVV, from MSDmotif at EBI
  • Fold representative 2zvv from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2zvv_A] [2zvv] [2zvv_B] [2zvv_X] [2zvv_Y]
  • SWISS-PROT database: [P38936] [Q9M7Q7]
  • Domain organization of [CDN1A_HUMAN] [PCNA1_ARATH] by SWISSPFAM
  • Other resources with information on 2ZVV
  • Community annotation for 2ZVV at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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