3CDP	Transcription	date	Feb 27, 2008
title	Crystal Structure Of Ppar-Gamma Lbd Complexed With A Partial Analogue Of Clofibric Acid
authors	G.Pochetti, R.Montanari, F.Mazza
compound		source
Molecule: Peroxisome Proliferator-Activated Receptor Gamma Chain: A, B Fragment: Ligand Binding Domain (Lbd), Unp Residues 223-504 Synonym: Ppar-Gamma, Nuclear Receptor Subfamily 1 Group C M Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21 De3 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet28
symmetry	Space Group: C 1 2 1	R_factor 0.236 R_Free 0.298
crystal cell	length a length b length c angle alpha angle beta angle gamma 93.210 61.650 118.360 90.00 103.01 90.00
method	X-Ray Diffraction	resolution	2.80 Å
ligand	YRG BindingDB	enzyme
Gene Ontology	Chain Function Process Component A, B
Primary reference	Synthesis, biological evaluation and molecular investigation of fluorinated peroxisome proliferator-activated receptors alpha/gamma dual agonists., Fracchiolla G, Laghezza A, Piemontese L, Parente M, Lavecchia A, Pochetti G, Montanari R, Di Giovanni C, Carbonara G, Tortorella P, Novellino E, Loiodice F, Bioorg Med Chem. 2012 Mar 15;20(6):2141-51. doi: 10.1016/j.bmc.2012.01.025. Epub , 2012 Jan 28. PMID:22341573

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (92 Kb) [Save to disk] Biological Unit Coordinates (3cdp.pdb1.gz) 88 Kb Biological Unit Coordinates (3cdp.pdb2.gz) 46 Kb Biological Unit Coordinates (3cdp.pdb3.gz) 44 Kb LPC: Ligand-Protein Contacts for 3CDP CSU: Contacts of Structural Units for 3CDP Likely Quarternary Molecular Structure file(s) for 3CDP Structure Factors (133 Kb) Retrieve 3CDP in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3CDP from S2C, [Save to disk] Re-refined 3cdp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3CDP 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 3CDP

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 3CDP, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3cdp_B] [3cdp] [3cdp_A] SWISS-PROT database: [P37231] Domain organization of [PPARG_HUMAN] by SWISSPFAM Domain found in 3CDP: [HOLI ] by SMART

Other resources with information on 3CDP

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

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