3VI8	Transcription	date	Sep 25, 2011
title	Human Ppar Alpha Ligand Binding Domain In Complex With A Syn Agonist Aphm13
authors	T.Oyama, H.Miyachi, K.Morikawa
compound		source
Molecule: Peroxisome Proliferator-Activated Receptor Alpha Chain: A Fragment: Ligand Binding Domain Synonym: Ppar-Alpha, Nuclear Receptor Subfamily 1 Group C M Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Ppara Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet28a
symmetry	Space Group: P 1 21 1	R_factor 0.214 R_Free 0.249
crystal cell	length a length b length c angle alpha angle beta angle gamma 44.368 61.304 53.179 90.00 106.95 90.00
method	X-Ray Diffraction	resolution	1.75 Å
ligand	13M BindingDB	enzyme
Gene Ontology	Chain Function Process Component A
Primary reference	Peroxisome proliferator-activated receptors (PPARs) have multiple binding points that accommodate ligands in various conformations: phenylpropanoic acid-type PPAR ligands bind to PPAR in different conformations, depending on the subtype., Kuwabara N, Oyama T, Tomioka D, Ohashi M, Yanagisawa J, Shimizu T, Miyachi H, J Med Chem. 2012 Jan 26;55(2):893-902. Epub 2012 Jan 10. PMID:22185225

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (49 Kb) [Save to disk] Biological Unit Coordinates (3vi8.pdb1.gz) 45 Kb LPC: Ligand-Protein Contacts for 3VI8 CSU: Contacts of Structural Units for 3VI8 Structure Factors (368 Kb) Retrieve 3VI8 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3VI8 from S2C, [Save to disk] Re-refined 3vi8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3VI8 in 3D

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Visual 3D analysis of 3VI8

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 3VI8, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3vi8] [3vi8_A] SWISS-PROT database: Domain organization of by SWISSPFAM Domain found in 3VI8: [HOLI ] by SMART

Other resources with information on 3VI8

Community annotation for 3VI8 at PDBWiki (http://pdbwiki.org)

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