3FUG Transcription Transcription Regulator date Jan 14, 2009
title Crystal Structure Of The Retinoid X Receptor Ligand Binding Domain Bound To The Synthetic Agonist 3-[4-Hydroxy-3-(3,5, 5,8,8-Pentamethyl-5,6,7,8-Tetrahydronaphthalen-2-Yl)- Phenyl]Acrylic Acid
authors W.Bourguet
compound source
Molecule: Retinoic Acid Receptor Rxr-Alpha
Chain: A
Fragment: Ligand Binding Domain (Residues 223-462)
Synonym: Retinoid X Receptor Alpha, Nuclear Receptor Subfamily 2 Group B Member 1;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Nr2b1, Rxra
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 (De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet15b

Molecule: Nuclear Receptor Coactivator 2
Chain: B
Fragment: Nuclear Receptor Interaction Motif 2 (Residues 686-698);
Synonym: Ncoa-2, Transcriptional Intermediary Factor 2, Htif2;
Engineered: Yes

Synthetic: Yes
Other_details: This Sequence Occurs Naturally In Humans. The Peptide Has Been Synthesized By Automatic Chemical Synthesis
symmetry Space Group: P 43 21 2
R_factor 0.205 R_Free 0.241
crystal
cell
length a length b length c angle alpha angle beta angle gamma
65.763 65.763 110.857 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand 2E3 enzyme
Primary referenceModulating Retinoid X Receptor with a Series of (E)-3-[4-Hydroxy-3-(3-alkoxy-5,5,8,8-tetramethyl-5,6,7,8-tetrahydronaphtha len-2-yl)phenyl]acrylic Acids and Their 4-Alkoxy Isomers (dagger)., Santin EP, Germain P, Quillard F, Khanwalkar H, Rodriguez-Barrios F, Gronemeyer H, de Lera AR, Bourguet W, J Med Chem. 2009 May 1. PMID:19408900
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (43 Kb) [Save to disk]
  • Biological Unit Coordinates (3fug.pdb1.gz) 39 Kb
  • Biological Unit Coordinates (3fug.pdb2.gz) 76 Kb
  • LPC: Ligand-Protein Contacts for 3FUG
  • CSU: Contacts of Structural Units for 3FUG
  • Likely Quarternary Molecular Structure file(s) for 3FUG
  • Structure Factors (802 Kb)
  • Retrieve 3FUG in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3FUG from S2C, [Save to disk]
  • Re-refined 3fug structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3FUG 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 3FUG
  • 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 3FUG, from MSDmotif at EBI
  • Fold representative 3fug from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3fug_B] [3fug_A] [3fug]
  • SWISS-PROT database: [Q15596] [P19793]
  • Domain organization of [NCOA2_HUMAN] [RXRA_HUMAN] by SWISSPFAM
  • Domain found in 3FUG: [HOLI ] by SMART
  • Other resources with information on 3FUG
  • Community annotation for 3FUG 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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