3HC8

Investigation of Aminopyridiopyrazinones as PDE5 Inhibitors: Evaluation of Modifications to the Central Ring System.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.79 Å
  • R-Value Free: 0.230 
  • R-Value Work: 0.196 
  • R-Value Observed: 0.198 

wwPDB Validation 3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Investigation of aminopyridiopyrazinones as PDE5 inhibitors: Evaluation of modifications to the central ring system.

Hughes, R.O.Walker, J.K.Cubbage, J.W.Fobian, Y.M.Rogier, D.J.Heasley, S.E.Blevis-Bal, R.M.Benson, A.G.Owen, D.R.Jacobsen, E.J.Freskos, J.N.Molyneaux, J.M.Brown, D.L.Stallings, W.C.Acker, B.A.Maddux, T.M.Tollefson, M.B.Williams, J.M.Moon, J.B.Mischke, B.V.Rumsey, J.M.Zheng, Y.Macinnes, A.Bond, B.R.Yu, Y.

(2009) Bioorg Med Chem Lett 

  • DOI: 10.1016/j.bmcl.2009.06.004
  • Primary Citation of Related Structures:  
    3HC8

  • PubMed Abstract: 
  • Efforts to improve the potency and physical properties of the aminopyridiopyrazinone class of PDE5 inhibitors through modification of the core ring system are described. Five new ring systems are evaluated and features that impart improved potency an ...

    Efforts to improve the potency and physical properties of the aminopyridiopyrazinone class of PDE5 inhibitors through modification of the core ring system are described. Five new ring systems are evaluated and features that impart improved potency and improved solubility are delineated.


    Organizational Affiliation

    Pfizer Global Research and Development, Chesterfield Parkway West, St. Louis, MO 63017, USA. robert.o.hughes@pfizer.com



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
cGMP-specific 3',5'-cyclic phosphodiesterase,cAMP-specific 3',5'-cyclic phosphodiesterase 4AA324Homo sapiensMutation(s): 0 
Gene Names: PDE5APDE5
EC: 3.1.4.35 (PDB Primary Data), 3.1.4.53 (PDB Primary Data)
Find proteins for O76074 (Homo sapiens)
Explore O76074 
Go to UniProtKB:  O76074
NIH Common Fund Data Resources
PHAROS  O76074
Find proteins for P27815 (Homo sapiens)
Explore P27815 
Go to UniProtKB:  P27815
NIH Common Fund Data Resources
PHAROS  P27815
Protein Feature View
Expand
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PD4
Query on PD4

Download CCD File 
A
6-(6-methoxypyridin-3-yl)-2-[(2-morpholin-4-ylethyl)amino]-4-(2-propoxyethyl)pyrido[2,3-b]pyrazin-3(4H)-one
C24 H32 N6 O4
KSAKYDGQTISGJC-UHFFFAOYSA-N
 Ligand Interaction
ZN
Query on ZN

Download CCD File 
A
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
MG
Query on MG

Download CCD File 
A
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
PD4IC50:  2.9000000953674316   nM  Binding MOAD
PD4IC50:  2.4000000953674316   nM  BindingDB
PD4IC50:  2.9000000953674316   nM  BindingDB
PD4IC50 :  2.9000000953674316   nM  PDBBind
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.79 Å
  • R-Value Free: 0.230 
  • R-Value Work: 0.196 
  • R-Value Observed: 0.198 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 54.691α = 90
b = 77.085β = 101.93
c = 77.514γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-2000data collection

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2009-07-07
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2017-06-21
    Changes: Advisory, Database references, Source and taxonomy, Structure summary
  • Version 1.3: 2017-11-01
    Changes: Refinement description
  • Version 1.4: 2018-01-24
    Changes: Structure summary