6E5Z Hydrolase, Unknown Function date Jul 23, 2018
title Crystal Structure Of Human Dj-1 With A Natural Modification
authors I.A.Shumilin, S.V.Shumilina, W.Minor
compound source
Molecule: Proteinnucleic Acid Deglycase Dj-1
Chain: A
Synonym: Maillard Deglycase,Oncogene Dj1,Parkinson Disease Parkinsonism-Associated Deglycase,Protein Dj-1,Dj-1;
Ec: 3.1.2.-,3.5.1.-,3.5.1.124
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Park7
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_variant: Bl21(De3) Ripl
Expression_system_vector_type: Phisparallel
symmetry Space Group: P 31 2 1
R_factor 0.112 R_Free 0.139
crystal
cell
length a length b length c angle alpha angle beta angle gamma
74.715 74.715 74.807 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.35 Å
ligand CCS, CL enzyme Hydrolase E.C.3.1.2 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A
  • transcription coactivator ac...
  • peroxiredoxin activity
  • glyoxalase (glycolic acid-fo...
  • synaptic transmission, dopam...
  • negative regulation of prote...
  • positive regulation of pepti...
  • dopamine uptake involved in ...
  • positive regulation of L-dop...

  • Primary referenceA transient post-translational modification of active site cysteine alters binding properties of the parkinsonism protein DJ-1., Mussakhmetov A, Shumilin IA, Nugmanova R, Shabalin IG, Baizhumanov T, Toibazar D, Khassenov B, Minor W, Utepbergenov D, Biochem Biophys Res Commun. 2018 Sep 26;504(1):328-333. doi:, 10.1016/j.bbrc.2018.08.190. Epub 2018 Sep 4. PMID:30190129
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (70 Kb) [Save to disk]
  • Biological Unit Coordinates (6e5z.pdb1.gz) 127 Kb
  • LPC: Ligand-Protein Contacts for 6E5Z
  • CSU: Contacts of Structural Units for 6E5Z
  • Structure Factors (1335 Kb)
  • Retrieve 6E5Z in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6E5Z from S2C, [Save to disk]
  • View 6E5Z 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 6E5Z
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6e5z_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6E5Z
  • Community annotation for 6E5Z at PDBWiki (http://pdbwiki.org)

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