3K9O Ligase date Oct 16, 2009
title The Crystal Structure Of E2-25k And Ubb+1 Complex
authors G.B.Kang, S.Ko, S.M.Song, W.Lee, S.H.Eom
compound source
Molecule: Ubiquitin-Conjugating Enzyme E2 K
Chain: A
Synonym: Ubiquitin-Conjugating Enzyme E2-25 Kda, E2(25k), E Ubiquitin-Protein Ligase, Ubiquitin Carrier Protein, Huntin Interacting Protein 2, Hip-2;
Ec: 6.3.2.19
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ube2k, Hip2, Lig
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Ubiquitin
Chain: B
Synonym: Ubb+1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ubb
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 1 2 1
R_factor 0.187 R_Free 0.233
crystal
cell
length a length b length c angle alpha angle beta angle gamma
102.480 50.547 71.323 90.00 125.01 90.00
method X-Ray Diffractionresolution 1.80 Å
ligand
enzyme Ligase E.C.6.3.2.19 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (51 Kb) [Save to disk]
  • Biological Unit Coordinates (3k9o.pdb1.gz) 46 Kb
  • CSU: Contacts of Structural Units for 3K9O
  • Structure Factors (197 Kb)
  • Retrieve 3K9O in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3K9O from S2C, [Save to disk]
  • Re-refined 3k9o structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3K9O 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 3K9O
  • 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 3K9O, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3k9o_A] [3k9o] [3k9o_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3K9O: [UBA] [UBCc] [UBQ ] by SMART
    • Other resources with information on 3K9O
  • Community annotation for 3K9O 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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