4KZI

Crystal Structure of TR3 LBD in complex with DPDO


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.41 Å
  • R-Value Free: 0.249 
  • R-Value Work: 0.206 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Orphan nuclear receptor TR3 acts in autophagic cell death via mitochondrial signaling

Wang, W.Wang, Y.Chen, H.Xing, Y.Li, F.Zhang, Q.Zhou, B.Zhang, H.Zhang, J.Bian, X.Li, L.Liu, Y.Zhao, B.Chen, Y.Wu, R.Li, A.Yao, A.Chen, P.Zhang, Y.Tian, X.Beermann, F.Wu, M.Han, J.Huang, P.Lin, T.Wu, Q.

(2013) Nat.Struct.Mol.Biol. --: --


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Nuclear receptor subfamily 4 group A member 1
B, A
257Homo sapiensMutation(s): 0 
Gene Names: NR4A1 (GFRP1, HMR, NAK1)
Find proteins for P22736 (Homo sapiens)
Go to Gene View: NR4A1
Go to UniProtKB:  P22736
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download SDF File 
Download CCD File 
A, B
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
ZJ0
Query on ZJ0

Download SDF File 
Download CCD File 
A
1-(3,5-dimethoxyphenyl)decan-1-one
C18 H28 O3
YVSIRBTWQSGOBH-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.41 Å
  • R-Value Free: 0.249 
  • R-Value Work: 0.206 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 74.723α = 90.00
b = 76.512β = 90.00
c = 128.918γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
HKL-2000data scaling
PDB_EXTRACTdata extraction
SCALEPACKdata scaling
REFMACrefinement
Blu-Icedata collection
DENZOdata reduction
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-12-18
    Type: Initial release
  • Version 1.1: 2017-11-15
    Type: Refinement description