2VJF Ligase date Dec 10, 2007
title Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
authors P.D.Mace, K.Linke, C.A.Smith, C.L.Day
compound source
Molecule: E3 Ubiquitin-Protein Ligase Mdm2
Chain: A, C
Fragment: Residues 383-446
Synonym: P53-Binding Protein Mdm2, Oncoprotein Mdm2, Double Protein, Hdm2, Mdm2;
Ec: 6.3.2.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex6p3

Molecule: Mdm4 Protein
Chain: B, D
Fragment: Residues 428-490
Synonym: P53-Binding Protein Mdm4, Mdm2-Like P53-Binding Pr Mdmx Protein, Double Minute 4 Protein;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex6p3
symmetry Space Group: P 1 21 1
R_factor 0.208 R_Free 0.234
crystal
cell
length a length b length c angle alpha angle beta angle gamma
54.216 41.784 76.939 90.00 109.03 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand FLC, ZN enzyme Ligase E.C.6.3.2 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, C


D, B


Primary referenceStructure of the MDM2/MDMX RING domain heterodimer reveals dimerization is required for their ubiquitylation in trans., Linke K, Mace PD, Smith CA, Vaux DL, Silke J, Day CL, Cell Death Differ. 2008 May;15(5):841-8. Epub 2008 Jan 25. PMID:18219319
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (49 Kb) [Save to disk]
  • Biological Unit Coordinates (2vjf.pdb1.gz) 22 Kb
  • Biological Unit Coordinates (2vjf.pdb2.gz) 22 Kb
  • LPC: Ligand-Protein Contacts for 2VJF
  • CSU: Contacts of Structural Units for 2VJF
  • Likely Quarternary Molecular Structure file(s) for 2VJF
  • Structure Factors (102 Kb)
  • Retrieve 2VJF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2VJF from S2C, [Save to disk]
  • Re-refined 2vjf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2VJF 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 2VJF
  • 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
  • 3D motif for 2VJF, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2vjf_C] [2vjf_D] [2vjf_B] [2vjf_A] [2vjf]
  • SWISS-PROT database: [Q00987] [O15151]
  • Domain organization of [MDM2_HUMAN] [MDM4_HUMAN] by SWISSPFAM
  • Domain found in 2VJF: [RING ] by SMART
  • Other resources with information on 2VJF
  • Community annotation for 2VJF 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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