4RMC Transcription date Oct 21, 2014
title Crystal Structure Of Human Retinoid X Receptor Alpha-Ligand Domain Complex With 9cuab76 And The Coactivator Peptide Gri
authors G.Xia, D.D.Muccio
compound source
Molecule: Retinoic Acid Receptor Rxr-Alpha
Chain: A
Fragment: Ligand Binding Domain 228-458
Synonym: Nuclear Receptor Subfamily 2 Group B Member 1, Ret Receptor Alpha;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Nr2b1, Rxra, Rxra Nr2b1
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)

Molecule: Nuclear Receptor Coactivator 2
Chain: B
Fragment: Coactivator Peptide Residues 686-698
Synonym: Ncoa-2, Class E Basic Helix-Loop-Helix Protein 75, Transcriptional Intermediary Factor 2, Htif2;
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 43 21 2
R_factor 0.187 R_Free 0.265
crystal
cell
length a length b length c angle alpha angle beta angle gamma
65.846 65.846 112.563 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.70 Å
ligand 3SV enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceConformationally Defined Rexinoids and Their Efficacy in the Prevention of Mammary Cancers., Atigadda VR, Xia G, Deshpande A, Wu L, Kedishvili N, Smith CD, Krontiras H, Bland KI, Grubbs CJ, Brouillette WJ, Muccio DD, J Med Chem. 2015 Oct 8;58(19):7763-74. doi: 10.1021/acs.jmedchem.5b00829. Epub, 2015 Sep 22. PMID:26331194
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (44 Kb) [Save to disk]
  • Biological Unit Coordinates (4rmc.pdb1.gz) 77 Kb
  • LPC: Ligand-Protein Contacts for 4RMC
  • CSU: Contacts of Structural Units for 4RMC
  • Structure Factors (106 Kb)
  • Retrieve 4RMC in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4RMC from S2C, [Save to disk]
  • Re-refined 4rmc structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4RMC 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 4RMC
  • 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
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4rmc_B] [4rmc_A] [4rmc]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4RMC: [HOLI ] by SMART
  • Other resources with information on 4RMC
  • Community annotation for 4RMC at PDBWiki (http://pdbwiki.org)

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