Discovery of novel inhibitors of PDE10A

Experimental Data Snapshot

  • Resolution: 1.53 Å
  • R-Value Free: 0.211 
  • R-Value Work: 0.184 
  • R-Value Observed: 0.186 

Starting Model: experimental
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Ligand Structure Quality Assessment 

This is version 1.2 of the entry. See complete history


Discovery of a Novel Class of Phosphodiesterase 10A Inhibitors and Identification of Clinical Candidate 2-[4-(1-Methyl-4-pyridin-4-yl-1H-pyrazol-3-yl)-phenoxymethyl]-quinoline (PF-2545920) for the Treatment of Schizophrenia

Verhoest, P.R.Chapin, D.S.Corman, M.Fonseca, K.Harms, J.F.Hou, X.Marr, E.S.Menniti, F.S.Nelson, F.O'Connor, R.Pandit, J.Proulx-Lafrance, C.Schmidt, A.W.Schmidt, C.J.Suiciak, J.A.Liras, S.

(2009) J Med Chem 52: 5188-5196

  • DOI: https://doi.org/10.1021/jm900521k
  • Primary Citation of Related Structures:  
    3HQW, 3HQY, 3HQZ, 3HR1

  • PubMed Abstract: 

    By utilizing structure-based drug design (SBDD) knowledge, a novel class of phosphodiesterase (PDE) 10A inhibitors was identified. The structure-based drug design efforts identified a unique "selectivity pocket" for PDE10A inhibitors, and interactions within this pocket allowed the design of highly selective and potent PDE10A inhibitors. Further optimization of brain penetration and drug-like properties led to the discovery of 2-[4-(1-methyl-4-pyridin-4-yl-1H-pyrazol-3-yl)-phenoxymethyl]-quinoline (PF-2545920). This PDE10A inhibitor is the first reported clinical entry for this mechanism in the treatment of schizophrenia.

  • Organizational Affiliation

    Neuroscience, Pfizer Global Research and Development, Eastern Point Road, Groton, CT 06340, USA. patrick.r.verhoest@pfizer.com

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
cAMP and cAMP-inhibited cGMP 3',5'-cyclic phosphodiesterase 10A380Rattus norvegicusMutation(s): 0 
Gene Names: Pde10a
EC: (PDB Primary Data), (PDB Primary Data)
Find proteins for Q9QYJ6 (Rattus norvegicus)
Explore Q9QYJ6 
Go to UniProtKB:  Q9QYJ6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9QYJ6
Sequence Annotations
  • Reference Sequence
Small Molecules
Binding Affinity Annotations 
IDSourceBinding Affinity
PF9 BindingDB:  3HR1 Ki: 0.17 (nM) from 1 assay(s)
IC50: min: 0.18, max: 2.6 (nM) from 11 assay(s)
PDBBind:  3HR1 IC50: 0.37 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Resolution: 1.53 Å
  • R-Value Free: 0.211 
  • R-Value Work: 0.184 
  • R-Value Observed: 0.186 
  • Space Group: H 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 120.66α = 90
b = 120.66β = 90
c = 83.21γ = 120
Software Package:
Software NamePurpose
d*TREKdata scaling
PDB_EXTRACTdata extraction

Structure Validation

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Ligand Structure Quality Assessment 

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2009-08-04
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2023-09-06
    Changes: Data collection, Database references, Derived calculations, Refinement description