2Q5G Transcription date Jun 01, 2007
title Ligand Binding Domain Of Ppar Delta Receptor In Complex With Agonist
authors I.Pettersson, P.Sauerberg, E.Johansson, I.Hoffman, L.W.Tari, M.J. J.Nix
compound source
Molecule: Peroxisome Proliferator-Activated Receptor Delta
Chain: A, B
Fragment: Ligand Binding Domain
Synonym: Ppar-Delta, Ppar- Beta, Nuclear Hormone Receptor 1 Nuci;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Gene: Ppard, Nr1c2, Pparb
Expression_system: Escherichia Coli
symmetry Space Group: C 1 2 1
R_factor 0.225 R_Free 0.305
crystal
cell
length a length b length c angle alpha angle beta angle gamma
112.577 65.603 101.149 90.00 124.05 90.00
method X-Ray Diffractionresolution 2.70 Å
ligand 1FA BindingDB enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceDesign of a partial PPARdelta agonist., Pettersson I, Ebdrup S, Havranek M, Pihera P, Korinek M, Mogensen JP, Jeppesen CB, Johansson E, Sauerberg P, Bioorg Med Chem Lett. 2007 Aug 15;17(16):4625-9. Epub 2007 May 27. PMID:17560785
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (82 Kb) [Save to disk]
  • Biological Unit Coordinates (2q5g.pdb1.gz) 40 Kb
  • Biological Unit Coordinates (2q5g.pdb2.gz) 39 Kb
  • Biological Unit Coordinates (2q5g.pdb3.gz) 152 Kb
  • LPC: Ligand-Protein Contacts for 2Q5G
  • CSU: Contacts of Structural Units for 2Q5G
  • Likely Quarternary Molecular Structure file(s) for 2Q5G
  • Structure Factors (124 Kb)
  • Retrieve 2Q5G in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2Q5G from S2C, [Save to disk]
  • Re-refined 2q5g structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2Q5G 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 2Q5G
  • 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 2Q5G, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2q5g_B] [2q5g_A] [2q5g]
  • SWISS-PROT database: [Q03181]
  • Domain organization of [PPARD_HUMAN] by SWISSPFAM
  • Domain found in 2Q5G: [HOLI ] by SMART
  • Other resources with information on 2Q5G
  • Community annotation for 2Q5G 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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