3VI5	Isomerase Isomerase Inhibitor	date	Sep 21, 2011
title	Human Hematopoietic Prostaglandin D Synthase Inhibitor Compl Structures
authors	Y.Kado, T.Inoue
compound		source
Molecule: Hematopoietic Prostaglandin D Synthase Chain: A, B, C, D Synonym: H-Pgds, Gst Class-Sigma, Glutathione S-Transferase Glutathione-Dependent Pgd Synthase, Glutathione-Requiring Prostaglandin D Synthase, Prostaglandin-H2 D-Isomerase; Ec: 5.3.99.2, 2.5.1.18 Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Hpgds, Gsts, Pgds, Ptgds2 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_vector_type: Plasmid
symmetry	Space Group: P 1	R_factor 0.176 R_Free 0.249
crystal cell	length a length b length c angle alpha angle beta angle gamma 47.277 48.986 91.919 95.80 90.99 90.14
method	X-Ray Diffraction	resolution	2.00 Å
ligand	CA, GOL, GSH, M4M	enzyme	Isomerase E.C.5.3.99.2 BRENDA
Gene Ontology	Chain Function Process Component A, D, C, B
Primary reference	Human hematopoietic prostaglandin D synthase inhibitor complex structures., Kado Y, Aritake K, Uodome N, Okano Y, Okazaki N, Matsumura H, Urade Y, Inoue T, J Biochem. 2012 Apr;151(4):447-55. Epub 2012 Mar 13. PMID:22418579

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (152 Kb) [Save to disk] Biological Unit Coordinates (3vi5.pdb1.gz) 75 Kb Biological Unit Coordinates (3vi5.pdb2.gz) 75 Kb LPC: Ligand-Protein Contacts for 3VI5 CSU: Contacts of Structural Units for 3VI5 Structure Factors (795 Kb) Retrieve 3VI5 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3VI5 from S2C, [Save to disk] Re-refined 3vi5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3VI5 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 3VI5

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 3VI5, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3vi5_B] [3vi5] [3vi5_D] [3vi5_C] [3vi5_A] SWISS-PROT database: Domain organization of by SWISSPFAM

Other resources with information on 3VI5

Community annotation for 3VI5 at PDBWiki (http://pdbwiki.org)

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