1YLA Ligase date Jan 19, 2005
title Ubiquitin-Conjugating Enzyme E2-25 Kda (Huntington Interacti 2)
authors J.Choe, G.V.Avvakumov, E.M.Newman, F.Mackenzie, I.Kozieradzki, A.Bochkarev, M.Sundstrom, C.Arrowsmith, A.Edwards, S.Dhe-Pagano Structural Genomics Consortium (Sgc)
compound source
Molecule: Ubiquitin-Conjugating Enzyme E2-25 Kda
Chain: A, B
Synonym: Ubiquitin- Protein Ligase, Ubiquitin Carrier Prote 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
Expression_system_taxid: 562
symmetry Space Group: P 1
R_factor 0.225 R_Free 0.269
crystal
cell
length a length b length c angle alpha angle beta angle gamma
37.831 55.022 61.762 64.19 74.61 69.89
method X-Ray Diffractionresolution 2.40 Å
ligand
enzyme Ligase E.C.6.3.2.19 BRENDA
related structures by homologous chain: 2BF8
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructural basis of E2-25K/UBB+1 interaction leading to proteasome inhibition and neurotoxicity., Ko S, Kang GB, Song SM, Lee JG, Shin DY, Yoon J, Sheng Y, Cheong C, Jeon YH, Jung YK, Arrowsmith CH, Avvakumov GV, Dhe-Paganon S, Yoo YJ, Eom SH, Lee W, J Biol Chem. 2010 Sep 8. PMID:20826778
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (69 Kb) [Save to disk]
  • Biological Unit Coordinates (1yla.pdb1.gz) 65 Kb
  • CSU: Contacts of Structural Units for 1YLA
  • Likely Quarternary Molecular Structure file(s) for 1YLA
  • Structure Factors (105 Kb)
  • Retrieve 1YLA in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1YLA from S2C, [Save to disk]
  • Re-refined 1yla structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1YLA 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 1YLA
  • 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 1YLA, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1yla_A] [1yla] [1yla_B]
  • SWISS-PROT database: [P61086]
  • Domain organization of [UBE2K_HUMAN] by SWISSPFAM
  • Domains found in 1YLA: [UBA] [UBCc ] by SMART
  • Other resources with information on 1YLA
  • Community annotation for 1YLA 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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