3V9V	Transcription Transcription Regulator	date	Dec 28, 2011
title	Crystal Structure Of The Ppargamma-Lbd Complexed With A Cerc Derivative Modulator
authors	Y.Matsui, H.Hanzawa
compound		source
Molecule: Peroxisome Proliferator-Activated Receptor Gamma Chain: A Fragment: Ligand Binding Domain, Unp Residues 234-505 Synonym: Ppar-Gamma, Nuclear Receptor Subfamily 1 Group C M Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Pparg, Nr1c3 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_vector_type: Plasmid
Molecule: Peptide From Peroxisome Proliferator-Activated Re Gamma Coactivator 1-Alpha; Chain: C Synonym: Pgc-1-Alpha, Ppar-Gamma Coactivator 1-Alpha, Pparg Ligand Effect Modulator 6; Engineered: Yes		Synthetic: Yes Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606
symmetry	Space Group: P 1 21 1	R_factor 0.224 R_Free 0.244
crystal cell	length a length b length c angle alpha angle beta angle gamma 38.910 54.516 66.543 90.00 91.89 90.00
method	X-Ray Diffraction	resolution	1.60 Å
ligand	21L BindingDB	enzyme
Gene Ontology	Chain Function Process Component A
Primary reference	Substituents at the naphthalene C3 position of (-)-Cercosporamide derivatives significantly affect the maximal efficacy as PPARgamma partial agonists., Furukawa A, Arita T, Fukuzaki T, Satoh S, Mori M, Honda T, Matsui Y, Wakabayashi K, Hayashi S, Araki K, Ohsumi J, Bioorg Med Chem Lett. 2012 Feb 1;22(3):1348-51. Epub 2011 Dec 16. PMID:22225641

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (52 Kb) [Save to disk] Biological Unit Coordinates (3v9v.pdb1.gz) 47 Kb LPC: Ligand-Protein Contacts for 3V9V CSU: Contacts of Structural Units for 3V9V Structure Factors (418 Kb) Retrieve 3V9V in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3V9V from S2C, [Save to disk] Re-refined 3v9v structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3V9V 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 3V9V

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 3V9V, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3v9v_C] [3v9v_A] [3v9v] SWISS-PROT database: Domain organization of by SWISSPFAM Domain found in 3V9V: [HOLI ] by SMART

Other resources with information on 3V9V

Community annotation for 3V9V at PDBWiki (http://pdbwiki.org)

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