1MVC

Crystal structure of the human RXR alpha ligand binding domain bound to the synthetic agonist compound BMS 649 and a coactivator peptide

Structural Biology Knowledgebase: 1MVC SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.228
  • R-Value Work: 0.201

Literature

Macromolecules
Sequence Display for 1MVC

Classification: Transcription

Total Structure Weight: 28815.57

Macromolecule Entities
Molecule Chains Length Organism Details
RXR retinoid X receptor A 240 Homo sapiens Fragment: ligand binding domain(residues 223-462)
Gene Name(s): RXRA Gene View NR2B1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Nuclear receptor coactivator 2 B 13 Homo sapiens Fragment: NR box
Gene Name(s): NCOA2 Gene View BHLHE75 SRC2 TIF2
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
BM6
Query on BM6

A 4-[2-(5,5,8,8-TETRAMETHYL-5,6,7,8-TETRAHYDRO- NAPHTHALEN-2-YL)-[1,3]DIOXOLAN-2-YL]-BENZOIC ACID
BMS649 (Synonym)
C24 H27 O4
ZZUKALQMHNSWTK-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
BM6 EC50: 34 - 180 nM (87 - 100) BindingDB

N/A in BindingMoad
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.228
  • R-Value Work: 0.201
  • Space Group: P 43 21 2

Unit Cell:

Length (Å) Angle (°)
a = 64.51 α = 90.00
b = 64.51 β = 90.00
c = 111.46 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-09-24
  • Released Date: 2002-10-16
  • Deposition author(s): Egea, P.F., Mitschler, A., Moras, D.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4