2ZNP

Human PPAR delta ligand binding domain in complex with a synthetic agonist TIPP204


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.288
  • R-Value Work: 0.230

Literature

Macromolecules
Sequence Display for 2ZNP

Classification: TRANSCRIPTION

Total Structure Weight: 64551.43

Macromolecule Entities
Molecule Chains Length Organism Details
Peroxisome proliferator-activated receptor delta A, B 276 Homo sapiens Fragment: Ligand binding domain
Gene Name(s): PPARD Gene View NR1C2 PPARB
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
K55
Query on K55

A, B (2S)-2-{4-butoxy-3-[({[2-fluoro-4-(trifluoromethyl)phenyl]carbonyl}amino)methyl]benzyl}butanoic acid
(S)-2-{4-butoxy-3-[(2-fluoro-4-trifluoromethylbenzoylamino)methyl]benzyl} butyric acid (Synonym)
C24 H27 F4 N O4
AJSFKATVCYWKJN-INIZCTEOSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
B7G
Query on B7G

A, B HEPTYL-BETA-D-GLUCOPYRANOSIDE
C13 H26 O6
NIDYWHLDTIVRJT-UJPOAAIJSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
K55 EC50: 0.72 - 0.91 nM (100) BindingDB

N/A in BindingMoad
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.288
  • R-Value Work: 0.230
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 39.49 α = 90.00
b = 93.15 β = 97.48
c = 96.37 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-04-30
  • Released Date: 2009-05-05
  • Deposition author(s): Oyama, T., Hirakawa, Y., Nagasawa, N., Miyachi, H., Morikawa, K.

Revision History

  • 2016-03-02
    Type: Entry title | Details: --
  • 2012-04-11
    Type: Citation | Details: update pubmed id
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4