4QJR

Crystal structure of human nuclear receptor sf-1 (nr5a1) bound to its hormone pip3 at 2.4 a resolution


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.230
  • R-Value Work: 0.190

Literature

Macromolecules
Sequence Display for 4QJR

Classification: TRANSCRIPTION FACTOR / HORMONE

Total Structure Weight: 30596.32

Macromolecule Entities
Molecule Chains Length Organism Details
Steroidogenic factor 1 A 245 Homo sapiens Fragment: UNP residues 218-461
Mutation: C247S, C412S
Gene Name(s): NR5A1 Gene View AD4BP FTZF1 SF1 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Peroxisome proliferator-activated receptor gamma coactivator 1-alpha B 14 Homo sapiens Fragment: UNP residues 139-152
Gene Name(s): PPARGC1A Gene View LEM6 PGC1 PGC1A PPARGC1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A (2S)-3-{[(R)-{[(1S,2S,3R,4S,5S,6S)-2,6-dihydroxy- 3,4,5-tris(phosphonooxy)cyclohexyl]oxy}(hydroxy)phosphoryl]oxy}propane- 1,2-diyl dihexadecanoate
4, (Synonym)
C41 H82 O22 P4
ZSZXYWFCIKKZBT-XMZWCAJNSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ACT
Query on ACT

A ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
PIZ N/A in BindingDB
Kd: 80 nM  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

Unit Cell:

Length (Å) Angle (°)
a = 74.85 α = 90.00
b = 74.85 β = 90.00
c = 139.63 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2014-06-04
  • Released Date: 2014-07-30
  • Deposition author(s): Joint Center for Structural Genomics (JCSG), Partnership for Stem Cell Biology (STEMCELL)

Revision History

  • Version 1_0: 2014-07-30

    Type: Initial release

  • Version 1_1: 2014-11-12

    Type: Database references