3F71 Chaperone date Nov 07, 2008
title Crystal Structure Of E18d Dj-1 With Oxidized C106
authors M.Lakshminarasimhan, M.A.Wilson
compound source
Molecule: Protein Dj-1
Chain: A
Synonym: Oncogene Dj1, Parkinson Disease Protein 7
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Park 7, Park7
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet21a
symmetry Space Group: P 31 2 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
74.750 74.750 74.800 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.20 Å
ligand CSO enzyme
Gene
Ontology
ChainFunctionProcessComponent
A
  • negative regulation of prote...

  • Primary referenceFormation of a Stabilized Cysteine Sulfinic Acid Is Critical for the Mitochondrial Function of the Parkinsonism Protein DJ-1., Blackinton J, Lakshminarasimhan M, Thomas KJ, Ahmad R, Greggio E, Raza AS, Cookson MR, Wilson MA, J Biol Chem. 2009 Mar 6;284(10):6476-85. Epub 2009 Jan 5. PMID:19124468
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (74 Kb) [Save to disk]
  • Biological Unit Coordinates (3f71.pdb1.gz) 139 Kb
  • LPC: Ligand-Protein Contacts for 3F71
  • CSU: Contacts of Structural Units for 3F71
  • Likely Quarternary Molecular Structure file(s) for 3F71
  • Structure Factors (567 Kb)
  • Retrieve 3F71 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3F71 from S2C, [Save to disk]
  • Re-refined 3f71 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3F71 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 3F71
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3F71, from MSDmotif at EBI
  • Fold representative 3f71 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3f71] [3f71_A]
  • SWISS-PROT database: [Q99497]
  • Domain organization of [PARK7_HUMAN] by SWISSPFAM
  • Alignments of the sequence of 3F71 with the sequences similar proteins can be viewed for 3F71's classification [PARK7_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [PARK7_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3F71
  • Community annotation for 3F71 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
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  • Images from IMB Jena Image Library of Biological Macromolecules.

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