2POB Gene Regulation date Apr 26, 2007
title Ppargamma Ligand Binding Domain Complexed With A Farglitazar Gw4709
authors R.T.Nolte
compound source
Molecule: Peroxisome Proliferator-Activated Receptor Gamma
Chain: A, B
Fragment: Ligand Binding Domain
Synonym: Ppar-Gamma
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Pparg, Nr1c3
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 1 2 1
R_factor 0.225 R_Free 0.273
length a length b length c angle alpha angle beta angle gamma
92.916 62.006 118.172 90.00 101.94 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand GOL, GW4 BindingDB enzyme
A, B

Primary referenceCo-crystal structure guided array synthesis of PPARgamma inverse agonists., Trump RP, Cobb JE, Shearer BG, Lambert MH, Nolte RT, Willson TM, Buckholz RG, Zhao SM, Leesnitzer LM, Iannone MA, Pearce KH, Billin AN, Hoekstra WJ, Bioorg Med Chem Lett. 2007 Jul 15;17(14):3916-20. Epub 2007 May 18. PMID:17533125
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (91 Kb) [Save to disk]
  • Biological Unit Coordinates (2pob.pdb1.gz) 86 Kb
  • LPC: Ligand-Protein Contacts for 2POB
  • CSU: Contacts of Structural Units for 2POB
  • Likely Quarternary Molecular Structure file(s) for 2POB
  • Structure Factors (222 Kb)
  • Retrieve 2POB in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2POB from S2C, [Save to disk]
  • Re-refined 2pob structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2POB 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 2POB
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2POB, from MSDmotif at EBI
  • Fold representative 2pob from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2pob_A] [2pob] [2pob_B]
  • SWISS-PROT database: [P37231]
  • Domain organization of [PPARG_HUMAN] by SWISSPFAM
  • Domain found in 2POB: [HOLI ] by SMART
  • Other resources with information on 2POB
  • Community annotation for 2POB at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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