2O25 Ligase date Nov 29, 2006
title Ubiquitin-Conjugating Enzyme E2-25 Kda Complexed With Sumo-1 Conjugating Enzyme Ubc9
authors J.R.Walker, G.V.Avvakumov, S.Xue, E.M.Newman, F.Mackenzie, J.Weig M.Sundstrom, C.H.Arrowsmith, A.M.Edwards, A.Bochkarev, S.Dhe-Pa Structural Genomics Consortium (Sgc)
compound source
Molecule: Ubiquitin-Conjugating Enzyme E2-25 Kda
Chain: A, B
Synonym: Ubiquitin-Protein Ligase, Ubiquitin Carrier Protei Huntingtin-Interacting Protein 2, Hip-2;
Ec: 6.3.2.19
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hip2, Lig
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28-Lic

Molecule: Sumo-1-Conjugating Enzyme Ubc9
Chain: C, D
Synonym: Sumo-1-Protein Ligase, Ubiquitin-Conjugating Enzym Ubiquitin-Protein Ligase I, Ubiquitin Carrier Protein I, Ub Carrier Protein 9, P18;
Ec: 6.3.2.19
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ube2i, Ubc9, Ubce9
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28-Lic
symmetry Space Group: P 1
R_factor 0.228 R_Free 0.291
crystal
cell
length a length b length c angle alpha angle beta angle gamma
41.874 68.498 91.277 85.05 80.85 75.83
method X-Ray Diffractionresolution 2.60 Å
ligand
enzyme Ligase E.C.6.3.2.19 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


D, C
  • SUMO conjugating enzyme acti...


  • Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (119 Kb) [Save to disk]
  • Biological Unit Coordinates (2o25.pdb1.gz) 55 Kb
  • Biological Unit Coordinates (2o25.pdb2.gz) 56 Kb
  • CSU: Contacts of Structural Units for 2O25
  • Likely Quarternary Molecular Structure file(s) for 2O25
  • Structure Factors (214 Kb)
  • Retrieve 2O25 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2O25 from S2C, [Save to disk]
  • Re-refined 2o25 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2O25 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 2O25
  • 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 2O25, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2o25_A] [2o25_C] [2o25] [2o25_B] [2o25_D]
  • SWISS-PROT database: [P63279] [P61086]
  • Belongs to the peroxisomal protein importer (ppi) family according to TCDB.
  • Domain organization of [UBC9_HUMAN] [UBE2K_HUMAN] by SWISSPFAM
  • Domains found in 2O25: [UBA] [UBCc ] by SMART
  • Other resources with information on 2O25
  • Community annotation for 2O25 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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