1V40	Isomerase	date	Nov 07, 2003
title	First Inhibitor Complex Structure Of Human Hematopoietic Pro D Synthase
authors	T.Inoue, Y.Okano, Y.Kado, K.Aritake, D.Irikura, N.Uodome, S.Kinuga N.Okazaki, H.Matsumura, Y.Kai, Y.Urade
compound		source
Molecule: Glutathione-Requiring Prostaglandin D Synthase Chain: A, B, C, D Synonym: Glutathione-Dependent Pgd Synthetase, Prostaglandi Isomerase, Hematopoietic Prostaglandin D Synthase, H-Pgds; Ec: 5.3.99.2 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: P 1	R_factor 0.195 R_Free 0.215
crystal cell	length a length b length c angle alpha angle beta angle gamma 47.288 49.237 94.526 93.25 89.98 90.01
method	X-Ray Diffraction	resolution	1.90 Å
ligand	GOL, GSH, MG, O16	enzyme	Isomerase E.C.5.3.99.2 BRENDA
related structures	by homologous chain: 1IYI, 1PD2
Gene Ontology	Chain Function Process Component A, D, C, B
Primary reference	First determination of the inhibitor complex structure of human hematopoietic prostaglandin D synthase., Inoue T, Okano Y, Kado Y, Aritake K, Irikura D, Uodome N, Okazaki N, Kinugasa S, Shishitani H, Matsumura H, Kai Y, Urade Y, J Biochem (Tokyo). 2004 Mar;135(3):279-83. PMID:15113825

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (169 Kb) [Save to disk] Biological Unit Coordinates (1v40.pdb1.gz) 84 Kb Biological Unit Coordinates (1v40.pdb2.gz) 82 Kb LPC: Ligand-Protein Contacts for 1V40 CSU: Contacts of Structural Units for 1V40 Likely Quarternary Molecular Structure file(s) for 1V40 Structure Factors (729 Kb) Retrieve 1V40 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1V40 from S2C, [Save to disk] Re-refined 1v40 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1V40 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 1V40

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 1V40, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1v40a2, region A:2-75 [Jmol] [rasmolscript] [script source]     - Domain d1v40a1, region A:76-199 [Jmol] [rasmolscript] [script source]     - Domain d1v40b2, region B:202-275 [Jmol] [rasmolscript] [script source]     - Domain d1v40b1, region B:276-399 [Jmol] [rasmolscript] [script source]     - Domain d1v40c2, region C:402-475 [Jmol] [rasmolscript] [script source]     - Domain d1v40c1, region C:476-599 [Jmol] [rasmolscript] [script source]     - Domain d1v40d2, region D:602-675 [Jmol] [rasmolscript] [script source]     - Domain d1v40d1, region D:676-799 [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: [1v40_A] [1v40_B] [1v40_D] [1v40_C] [1v40] SWISS-PROT database: [O60760] Domain organization of [HPGDS_HUMAN] by SWISSPFAM

Other resources with information on 1V40

Community annotation for 1V40 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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