3RZ3 Ligase Ligase Inhibitor date May 11, 2011
title Human Cdc34 E2 In Complex With Cc0651 Inhibitor
authors D.F.Ceccarelli, D.R.Webb, F.Sicheri
compound source
Molecule: Ubiquitin-Conjugating Enzyme E2 R1
Chain: A, B, C, D
Fragment: Unp Residues 7-184
Synonym: Ubiquitin-Conjugating Enzyme E2-32 Kda Complementi Ubiquitin-Conjugating Enzyme E2-Cdc34, Ubiquitin-Protein Li
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cdc34, Ubch3, Ube2r1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: F 2 2 2
R_factor 0.221 R_Free 0.258
length a length b length c angle alpha angle beta angle gamma
121.797 139.525 216.059 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand U94 enzyme Ligase E.C. BRENDA
Primary referenceAn allosteric inhibitor of the human cdc34 ubiquitin-conjugating enzyme., Ceccarelli DF, Tang X, Pelletier B, Orlicky S, Xie W, Plantevin V, Neculai D, Chou YC, Ogunjimi A, Al-Hakim A, Varelas X, Koszela J, Wasney GA, Vedadi M, Dhe-Paganon S, Cox S, Xu S, Lopez-Girona A, Mercurio F, Wrana J, Durocher D, Meloche S, Webb DR, Tyers M, Sicheri F, Cell. 2011 Jun 24;145(7):1075-87. Epub 2011 Jun 16. PMID:21683433
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (211 Kb) [Save to disk]
  • Biological Unit Coordinates (3rz3.pdb1.gz) 54 Kb
  • Biological Unit Coordinates (3rz3.pdb2.gz) 55 Kb
  • Biological Unit Coordinates (3rz3.pdb3.gz) 52 Kb
  • Biological Unit Coordinates (3rz3.pdb4.gz) 49 Kb
  • LPC: Ligand-Protein Contacts for 3RZ3
  • CSU: Contacts of Structural Units for 3RZ3
  • Structure Factors (574 Kb)
  • Retrieve 3RZ3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3RZ3 from S2C, [Save to disk]
  • Re-refined 3rz3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3RZ3 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 3RZ3
  • 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 3RZ3, from MSDmotif at EBI
  • Fold representative 3rz3 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3rz3_D] [3rz3_B] [3rz3_C] [3rz3_A] [3rz3]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3RZ3: [UBCc ] by SMART
  • Other resources with information on 3RZ3
  • Community annotation for 3RZ3 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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