3OAP Transcription date Aug 05, 2010
title Crystal Structure Of Human Retinoid X Receptor Alpha-Ligand Domain Complex With 9-Cis Retinoic Acid And The Coactivator Grip-1
authors G.Xia, C.D.Smith, D.D.Muccio
compound source
Molecule: Retinoic Acid Receptor Rxr-Alpha
Chain: A
Fragment: Hrxralpha-Lbd, Unp Residues 228-458
Synonym: Retinoid X Receptor Alpha, Nuclear Receptor Subfam Group B Member 1;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Rxra, Nr2b1
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Nuclear Receptor Coactivator 2
Chain: B
Fragment: Grip-1, Unp Residues 686-696
Synonym: Ncoa-2, Transcriptional Intermediary Factor 2, Hti E Basic Helix-Loop-Helix Protein 75, Bhlhe75, Glucocorticoi Interacting Protein-1 (Grip-1);
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 43 21 2
R_factor 0.204 R_Free 0.244
crystal
cell
length a length b length c angle alpha angle beta angle gamma
65.831 65.831 111.856 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.05 Å
ligand REA BindingDB enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceStructure, Energetics and Dynamics of Binding Coactivator Peptide to Human Retinoid X Receptor Alpha Ligand Binding Domain Complex with 9-cis-Retinoic Acid., Xia G, Boerma LJ, Cox BD, Qiu C, Kang S, Smith CD, Renfrow MB, Muccio DD, Biochemistry. 2010 Nov 4. PMID:21049972
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (44 Kb) [Save to disk]
  • Biological Unit Coordinates (3oap.pdb1.gz) 40 Kb
  • LPC: Ligand-Protein Contacts for 3OAP
  • CSU: Contacts of Structural Units for 3OAP
  • Structure Factors (232 Kb)
  • Retrieve 3OAP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3OAP from S2C, [Save to disk]
  • Re-refined 3oap structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3OAP 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 3OAP
  • 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 3OAP, from MSDmotif at EBI
  • Fold representative 3oap from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3oap_B] [3oap_A] [3oap]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3OAP: [HOLI ] by SMART
  • Other resources with information on 3OAP
  • Community annotation for 3OAP 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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