4DHJ The structure of a ceOTUB1 ubiquitin aldehyde UBC13~Ub complex date
authors Wiener, R., Zhang, X., Wang, T., Wolberger, C.
compound source
symmetry
R_factor
R_Free 0.23686
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.35
ligand GLZ enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, E, I, L


N, K, C, G


Primary referenceThe mechanism of OTUB1-mediated inhibition of ubiquitination., Wiener R, Zhang X, Wang T, Wolberger C, Nature. 2012 Feb 22. doi: 10.1038/nature10911. PMID:22367539
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (693 Kb) [Save to disk]
  • Biological Unit Coordinates (4dhj.pdb1.gz) 164 Kb
  • Biological Unit Coordinates (4dhj.pdb2.gz) 162 Kb
  • Biological Unit Coordinates (4dhj.pdb3.gz) 29 Kb
  • Biological Unit Coordinates (4dhj.pdb4.gz) 160 Kb
  • Biological Unit Coordinates (4dhj.pdb5.gz) 161 Kb
  • Biological Unit Coordinates (4dhj.pdb6.gz) 29 Kb
  • LPC: Ligand-Protein Contacts for 4DHJ
  • CSU: Contacts of Structural Units for 4DHJ
  • Structure Factors (1460 Kb)
  • Retrieve 4DHJ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4DHJ from S2C, [Save to disk]
  • Re-refined 4dhj structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4DHJ 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 4DHJ
  • 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 4DHJ, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4dhj_B] [4dhj_A] [4dhj_L] [4dhj_K] [4dhj_C] [4dhj_E] [4dhj_H] [4dhj_J] [4dhj_N] [4dhj_I] [4dhj_G] [4dhj_M] [4dhj_F] [4dhj] [4dhj_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4DHJ: [UBCc] [UBQ ] by SMART
    • Other resources with information on 4DHJ
  • Community annotation for 4DHJ at PDBWiki (http://pdbwiki.org)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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