2C4P Ligase date Oct 21, 2005
title Crystal Structure Of Human Ubiquitin-Conjugating Enzyme Ubch
authors R.B.Dodd, R.J.Read
compound source
Molecule: Ubiquitin-Conjugating Enzyme E2 D1
Chain: A, B
Synonym: Ubiquitin-Protein Ligase D1, Ubiquitin Carrier Pro Ubch5, Ubiquitin-Conjugating Enzyme E2-17kda, Ubch5a;
Ec: 6.3.2.19
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_variant: Rosetta
Expression_system_vector: Pet Vector
Expression_system_plasmid: Petm-12 (Embl)
symmetry Space Group: P 1 21 1
R_factor 0.232 R_Free 0.272
crystal
cell
length a length b length c angle alpha angle beta angle gamma
45.621 50.565 66.043 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.35 Å
ligand
enzyme Ligase E.C.6.3.2.19 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (54 Kb) [Save to disk]
  • Biological Unit Coordinates (2c4p.pdb1.gz) 25 Kb
  • Biological Unit Coordinates (2c4p.pdb2.gz) 25 Kb
  • CSU: Contacts of Structural Units for 2C4P
  • Likely Quarternary Molecular Structure file(s) for 2C4P
  • Structure Factors (100 Kb)
  • Retrieve 2C4P in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2C4P from S2C, [Save to disk]
  • Re-refined 2c4p structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2C4P 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 2C4P
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 2C4P, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2c4p_B] [2c4p] [2c4p_A]
  • SWISS-PROT database: [P51668]
  • Domain organization of [UB2D1_HUMAN] by SWISSPFAM
  • Domain found in 2C4P: [UBCc ] by SMART
  • Other resources with information on 2C4P
  • Community annotation for 2C4P at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science