4HEU

Crystal Structure of PDE10A with a biaryl ether inhibitor ((1-(3-(4-((1H-benzo[d]imidazol-2-yl)amino)phenoxy)pyridin-2-yl)piperidin-4-yl)methanol)

Structural Biology Knowledgebase: 4HEU SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.199
  • R-Value Work: 0.186

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4HEU

Classification: hydrolase / hydrolase inhibitor

Total Structure Weight: 75960.60

Macromolecule Entities
Molecule Chains Length Organism Details
cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A A, B 318 Homo sapiens EC#: 3.1.4.17 IUBMB 3.1.4.35 IUBMB
Fragment: human PDE10a, residues 442-779
Gene Name(s): PDE10A Gene View

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
15J
Query on 15J

A, B (1-{3-[4-(1H-benzimidazol-2-ylamino)phenoxy]pyridin- 2-yl}piperidin-4-yl)methanol
C24 H25 N5 O2
XGFBQNCOZRNUGL-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A, B ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
15J IC50: 0.097 nM (100) BindingDB

IC50: 422 nM  BindingMOAD
IC50: 0.097 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.199
  • R-Value Work: 0.186
  • Space Group: F 2 3
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 252.86 α = 90.00
b = 252.86 β = 90.00
c = 252.86 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-10-04
  • Released Date: 2012-12-12
  • Deposition author(s): Chmait, S., Jordan, S.

Revision History

No revisions since initial release