3EZG	Chaperone	date	Oct 22, 2008
title	Crystal Structure Of E18q 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: Park7 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plsmid 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 74.770 74.770 74.790 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	1.15 Å
ligand	CSW	enzyme
Gene Ontology	Chain Function Process Component A RNA binding mRNA binding peroxidase activity protein binding peptidase activity hydrolase activity protein homodimerization act... peroxiredoxin activity synaptic transmission, dopam... proteolysis autophagy response to stress inflammatory response mitochondrion organization single fertilization cell death adult locomotory behavior negative regulation of prote... cellular response to oxidati... response to hydrogen peroxid... hydrogen peroxide metabolic ... regulation of neuron apoptot... negative regulation of neuro... regulation of inflammatory r... protein stabilization dopamine uptake involved in ... membrane depolarization membrane hyperpolarization negative regulation of cell ... regulation of androgen recep... cellular response to hydroge... positive regulation of oxida... negative regulation of extri... nucleus cytoplasm mitochondrion
Primary reference	Formation 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 (3ezg.pdb1.gz) 139 Kb LPC: Ligand-Protein Contacts for 3EZG CSU: Contacts of Structural Units for 3EZG Likely Quarternary Molecular Structure file(s) for 3EZG Structure Factors (667 Kb) Retrieve 3EZG in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3EZG from S2C, [Save to disk] Re-refined 3ezg structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3EZG 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

Visual 3D analysis of 3EZG

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 3EZG, from MSDmotif at EBI Fold representative 3ezg from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3ezg_A] SWISS-PROT database: [Q99497] Domain organization of [PARK7_HUMAN] by SWISSPFAM Alignments of the sequence of 3EZG with the sequences similar proteins can be viewed for 3EZG'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 3EZG

Community annotation for 3EZG at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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