2VV3 Receptor date Jun 02, 2008
title Hppargamma Ligand Binding Domain In Complex With 4-Oxodha
authors T.Itoh, L.Fairall, J.W.R.Schwabe
compound source
Molecule: Peroxisome Proliferator-Activated Receptor Gamma
Chain: A, B
Fragment: Ligand Binding Domain, Residues 202-475
Synonym: Ppar Gamma, Nuclear Receptor Subfamily 1 Group C M
Engineered: Yes
Other_details: 4-Oxodha
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_variant: Rosetta
Expression_system_plasmid: Pet30a Modified
symmetry Space Group: C 1 2 1
R_factor 0.225 R_Free 0.252
crystal
cell
length a length b length c angle alpha angle beta angle gamma
94.040 61.750 119.480 90.00 103.18 90.00
method X-Ray Diffractionresolution 2.85 Å
ligand 4R8 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructural basis for the activation of PPARgamma by oxidized fatty acids., Itoh T, Fairall L, Amin K, Inaba Y, Szanto A, Balint BL, Nagy L, Yamamoto K, Schwabe JW, Nat Struct Mol Biol. 2008 Sep;15(9):924-31. PMID:19172745
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (88 Kb) [Save to disk]
  • Biological Unit Coordinates (2vv3.pdb1.gz) 43 Kb
  • Biological Unit Coordinates (2vv3.pdb2.gz) 41 Kb
  • LPC: Ligand-Protein Contacts for 2VV3
  • CSU: Contacts of Structural Units for 2VV3
  • Likely Quarternary Molecular Structure file(s) for 2VV3
  • Structure Factors (211 Kb)
  • Retrieve 2VV3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2VV3 from S2C, [Save to disk]
  • Re-refined 2vv3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2VV3 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 2VV3
  • 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 2VV3, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2vv3_A] [2vv3_B] [2vv3]
  • SWISS-PROT database: [P37231]
  • Domain organization of [PPARG_HUMAN] by SWISSPFAM
  • Domain found in 2VV3: [HOLI ] by SMART
  • Other resources with information on 2VV3
  • Community annotation for 2VV3 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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