1PDV	Protein Binding	date	May 20, 2003
title	Crystal Structure Of Human Dj-1, P 31 2 1 Space Group
authors	X.Tao, L.Tong
compound		source
Molecule: Dj-1 Chain: A Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: P 31 2 1	R_factor 0.190 R_Free 0.215
crystal cell	length a length b length c angle alpha angle beta angle gamma 75.658 75.658 75.488 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	1.80 Å
ligand	MSE	enzyme
related structures	by homologous chain: 1PE0, 1UCF
Gene Ontology	Chain Function Process Component 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 reference	Crystal structure of human DJ-1, a protein associated with early onset Parkinson's disease., Tao X, Tong L, J Biol Chem 2003 Aug 15;278(33):31372-9. PMID:12761214

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (36 Kb) [Save to disk] Biological Unit Coordinates (1pdv.pdb1.gz) 63 Kb LPC: Ligand-Protein Contacts for 1PDV CSU: Contacts of Structural Units for 1PDV Likely Quarternary Molecular Structure file(s) for 1PDV Structure Factors (383 Kb) Retrieve 1PDV in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1PDV from S2C, [Save to disk] Re-refined 1pdv structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1PDV 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 1PDV

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 1PDV, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1pdva_, region A [Jmol] [rasmolscript] [script source] 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: [1pdv] [1pdv_A] SWISS-PROT database: [Q99497] Domain organization of [PARK7_HUMAN] by SWISSPFAM

Other resources with information on 1PDV

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

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