2B50 Gene Regulation date Sep 27, 2005
title Human Nuclear Receptor-Ligand Complex 2
authors S.A.Fyffe, M.S.Alphey, L.Buetow, T.K.Smith, M.A.J.Ferguson, M.D.S F.Bjorkling, W.N.Hunter
compound source
Molecule: Peroxisome Proliferator Activated Receptor Delta
Chain: A, B
Fragment: Residues 205-476
Synonym: Ppar-Delta, Ppar- Beta, Nuclear Hormone Receptor 1 Nuci;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 Gold (De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-15b
symmetry Space Group: P 1 21 1
R_factor 0.197 R_Free 0.249
length a length b length c angle alpha angle beta angle gamma
39.776 92.084 95.017 90.00 97.00 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand B7G, CA, VCA enzyme
A, B

Primary referenceRecombinant Human PPAR-beta/delta Ligand-binding Domain is Locked in an Activated Conformation by Endogenous Fatty Acids., Fyffe SA, Alphey MS, Buetow L, Smith TK, Ferguson MA, Sorensen MD, Bjorkling F, Hunter WN, J Mol Biol. 2006 Mar 3;356(4):1005-13. Epub 2006 Jan 4. PMID:16405912
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (100 Kb) [Save to disk]
  • Biological Unit Coordinates (2b50.pdb1.gz) 47 Kb
  • Biological Unit Coordinates (2b50.pdb2.gz) 49 Kb
  • LPC: Ligand-Protein Contacts for 2B50
  • CSU: Contacts of Structural Units for 2B50
  • Likely Quarternary Molecular Structure file(s) for 2B50
  • Structure Factors (253 Kb)
  • Retrieve 2B50 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2B50 from S2C, [Save to disk]
  • Re-refined 2b50 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2B50 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 2B50
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2B50, from MSDmotif at EBI
  • Fold representative 2b50 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2b50_B] [2b50_A] [2b50]
  • SWISS-PROT database: [Q03181]
  • Domain organization of [PPARD_HUMAN] by SWISSPFAM
  • Domain found in 2B50: [HOLI ] by SMART
  • Other resources with information on 2B50
  • Community annotation for 2B50 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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