3Q3B | pdb_00003q3b

6-Amino-4-(pyrimidin-4-yl)pyridones: Novel Glycogen Synthase Kinase-3 Inhibitors

• PDB DOI: https://doi.org/10.2210/pdb3Q3B/pdb

• Classification: TRANSFERASE/TRANSFERASE INHIBITOR
• Organism(s): Homo sapiens
• Expression System: Antheraea
• Mutation(s): No 


• Deposited: 2010-12-21 Released: 2011-06-15 
• Deposition Author(s): Pandit, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 
  0.259 (Depositor) 
• R-Value Work: 
  0.228 (Depositor) 

Literature

6-amino-4-(pyrimidin-4-yl)pyridones: novel glycogen synthase kinase-3β inhibitors

Coffman, K., Brodney, M., Cook, J., Lanyon, L., Pandit, J., Sakya, S., Schachter, J., Tseng-Lovering, E., Wessel, M.

(2011) Bioorg Med Chem Lett 21: 1429-1433

• PubMed: 21295469 
• DOI: https://doi.org/10.1016/j.bmcl.2011.01.017
• Primary Citation Related Structures: 
  3Q3B


• PubMed Abstract: 
  

  The synthesis and structure-activity relationships for a novel series of 6-amino-4-(pyrimidin-4-yl)pyridones derived from a high throughput screening hit are discussed. Optimization of lead matter afforded compounds with good potency, selectivity and central nervous system (CNS) exposure.

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Organizational Affiliation: 
• Pfizer Global Research and Development, Groton Laboratories, Groton, CT 06340, USA. [e-mail]

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 94.72 kDa 
• Atom Count: 5,521 
• Modeled Residue Count: 685 
• Deposited Residue Count: 848 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glycogen synthase kinase-3 beta	A, B	424	Homo sapiens	Mutation(s): 0  Gene Names: GSK3B EC: 2.7.11.26 (PDB Primary Data), 2.7.11.1 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for P49841 (Homo sapiens) Explore P49841  Go to UniProtKB:  P49841
PHAROS:  P49841 GTEx:  ENSG00000082701

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
55E	C [auth A], D [auth B]	4-(4-hydroxy-3-methylphenyl)-6-phenylpyrimidin-2(5H)-one C17 H14 N2 O2 AZXKZZMGLACNIJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free:  0.259 (Depositor) 
• R-Value Work:  0.228 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 83.453	α = 90
b = 85.647	β = 90
c = 178.8	γ = 90

Software Package:

Software Name	Purpose
CNX	refinement
HKL-2000	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-06-15 
Deposition Author(s): Pandit, J.

Revision History  

• Version 1.0: 2011-06-15
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2018-01-24
  Changes: Structure summary
• Version 1.3: 2024-02-21
  Changes: Data collection, Database references, Derived calculations