1P8D

X-Ray Crystal Structure of LXR Ligand Binding Domain with 24(S),25-epoxycholesterol


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.277
  • R-Value Work: 0.214

Literature

Macromolecules
Sequence Display for 1P8D

Classification: MEMBRANE PROTEIN / PROTEIN BINDING

Total Structure Weight: 63875.38

Macromolecule Entities
Molecule Chains Length Organism Details
Oxysterols receptor LXR-beta A, B 250 Homo sapiens Fragment: Liver X Receptor beta ligand binding domain (residues 214-461)
Gene Name(s): NR1H2 Gene View LXRB NER UNR
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
nuclear receptor coactivator 1 isoform 3 C, D 25 Homo sapiens EC#: 2.3.1.48 IUBMB
Fragment: Steroid Receptor Co-activator 1 (residues 676-700)
Gene Name(s): NCOA1 Gene View BHLHE74 SRC1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
CO1
Query on CO1

A, B 17-[3-(3,3-DIMETHYL-OXIRANYL)-1-METHYL-PROPYL]- 10,13-DIMETHYL-2,3,4,7,8,9,10,11,12,13,14,15,16,17- TETRADECAHYDRO-1H-CYCLOPENTA[A]PHENANTHREN- 3-OL
24,25(S)-EPOXYCHOLESTEROL (Synonym)
C27 H44 O2
OSENKJZWYQXHBN-XVYZBDJZSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
CO1 EC50: 286 - 400 nM (99) BindingDB

N/A in BindingMoad
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.277
  • R-Value Work: 0.214
  • Space Group: C 2 2 21

Unit Cell:

Length (Å) Angle (°)
a = 71.17 α = 90.00
b = 120.01 β = 90.00
c = 147.56 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-05-06
  • Released Date: 2003-07-08
  • Deposition author(s): Williams, S., Bledsoe, R.K., Collins, J.L., Boggs, S., Lambert, M.H., Miller, A.B., Moore, J., McKee, D.D., Moore, L., Nichols, J., Parks, D., Watson, M., Wisely, B., Willson, T.M.

Revision History

  • Version 1_0: 2003-07-08

    Type: Initial release

  • Version 1_1: 2008-04-29

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Version format compliance

  • Version 1_3: 2011-11-16

    Type: Atomic model

  • Version 1_4: 2017-10-11

    Type: Refinement description