1J42	Rna Binding Protein	date	Feb 26, 2003
title	Crystal Structure Of Human Dj-1
authors	S.S.Cha
compound		source
Molecule: Rna-Binding Protein Regulatory Subunit Chain: A Synonym: Dj-1 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet21a
symmetry	Space Group: P 31 2 1	R_factor 0.228 R_Free 0.249
crystal cell	length a length b length c angle alpha angle beta angle gamma 75.075 75.075 75.158 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	2.50 Å
related structures	by homologous chain: 1PDW
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	Crystal structures of human DJ-1 and Escherichia coli Hsp31, which share an evolutionarily conserved domain., Lee SJ, Kim SJ, Kim IK, Ko J, Jeong CS, Kim GH, Park C, Kang SO, Suh PG, Lee HS, Cha SS, J Biol Chem 2003 Nov 7;278(45):44552-9. Epub 2003 Aug 25. PMID:12939276

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (28 Kb) [Save to disk] Biological Unit Coordinates (1j42.pdb1.gz) 24 Kb Biological Unit Coordinates (1j42.pdb2.gz) 47 Kb CSU: Contacts of Structural Units for 1J42 Likely Quarternary Molecular Structure file(s) for 1J42 Structure Factors (123 Kb) Retrieve 1J42 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1J42 from S2C, [Save to disk] Re-refined 1j42 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1J42 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 1J42

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 1J42, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1j42a_, region A [Jmol] [rasmolscript] [script source] Fold representative 1j42 from FSSP and Dali (Families of Structurally Similar Proteins) Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH Summaries and structural analyses of PDB data files from PDBSum Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1j42_A] SWISS-PROT database: [Q99497] Domain organization of [PARK7_HUMAN] by SWISSPFAM Alignments of the sequence of 1J42 with the sequences similar proteins can be viewed for 1J42'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 1J42

Community annotation for 1J42 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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