3GBK	Ligand Binding Protein	date	Feb 19, 2009
title	Crystal Structure Of Human Ppar-Gamma Ligand Binding Domain With A Potent And Selective Agonist
authors	Y.H.Peng, C.H.Lin, H.P.Hsieh, S.Y.Wu
compound		source
Molecule: Peroxisome Proliferator-Activated Receptor Gamma Chain: A, B Fragment: Ligand Binding Domian, Unp Residues 235-505 Synonym: Ppar-Gamma, Nuclear Receptor Subfamily 1 Group C M Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Ppar Gamma Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgex6p-1
symmetry	Space Group: P 1 21 1	R_factor 0.230 R_Free 0.298
crystal cell	length a length b length c angle alpha angle beta angle gamma 56.502 88.892 58.371 90.00 91.06 90.00
method	X-Ray Diffraction	resolution	2.30 Å
ligand	2PQ BindingDB	enzyme
Gene Ontology	Chain Function Process Component A, B
Primary reference	Design and structural analysis of novel pharmacophores for potent and selective peroxisome proliferator-activated receptor gamma agonists., Lin CH, Peng YH, Coumar MS, Chittimalla SK, Liao CC, Lyn PC, Huang CC, Lien TW, Lin WH, Hsu JT, Cheng JH, Chen X, Wu JS, Chao YS, Lee HJ, Juo CG, Wu SY, Hsieh HP, J Med Chem. 2009 Apr 23;52(8):2618-22. PMID:19301897

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (93 Kb) [Save to disk] Biological Unit Coordinates (3gbk.pdb1.gz) 89 Kb LPC: Ligand-Protein Contacts for 3GBK CSU: Contacts of Structural Units for 3GBK Structure Factors (233 Kb) Retrieve 3GBK in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3GBK from S2C, [Save to disk] Re-refined 3gbk structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3GBK 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 3GBK

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 3GBK, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3gbk_B] [3gbk_A] [3gbk] SWISS-PROT database: [P37231] Domain organization of [PPARG_HUMAN] by SWISSPFAM Domain found in 3GBK: [HOLI ] by SMART

Other resources with information on 3GBK

Community annotation for 3GBK at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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