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PDBsum entry 3zo3

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protein ligands Protein-protein interface(s) links
Transferase/inhibitor PDB id
3zo3

 

 

 

 

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Contents
Protein chains
340 a.a.
18 a.a.
Ligands
QNI
MOH ×7
GOL ×4
Waters ×279
PDB id:
3zo3
Name: Transferase/inhibitor
Title: The synthesis and evaluation of diazaspirocyclic protein kinase inhibitors
Structure: Camp-dependent protein kinase catalytic subunit alpha. Chain: a. Synonym: pka c-alpha. Engineered: yes. Camp-dependent protein kinase inhibitor alpha. Chain: i. Fragment: residues 6-23. Synonym: pki-alpha. Engineered: yes
Source: Bos taurus. Bovine. Organism_taxid: 9913. Expressed in: escherichia coli. Expression_system_taxid: 469008. Synthetic: yes. Organism_taxid: 9913
Resolution:
2.10Å     R-factor:   0.176     R-free:   0.211
Authors: C.E.Allen,C.L.Chow,J.J.Caldwell,I.M.Westwood,R.L.Van Montfort, I.Collins
Key ref: C.E.Allen et al. (2013). Synthesis and evaluation of heteroaryl substituted diazaspirocycles as scaffolds to probe the ATP-binding site of protein kinases. Bioorg Med Chem Lett, 21, 5707-5724. PubMed id: 23920481 DOI: 10.1016/j.bmc.2013.07.021
Date:
20-Feb-13     Release date:   06-Mar-13    
PROCHECK
Go to PROCHECK summary
 Headers
 References

Protein chain
Pfam   ArchSchema ?
P00517  (KAPCA_BOVIN) -  cAMP-dependent protein kinase catalytic subunit alpha from Bos taurus
Seq:
Struc:
351 a.a.
340 a.a.*
Protein chain
Pfam   ArchSchema ?
Q3SX13  (IPKA_BOVIN) -  cAMP-dependent protein kinase inhibitor alpha from Bos taurus
Seq:
Struc:
76 a.a.
18 a.a.
Key:    PfamA domain  Secondary structure  CATH domain
* PDB and UniProt seqs differ at 1 residue position (black cross)

 Enzyme reactions 
   Enzyme class: Chain A: E.C.2.7.11.11  - cAMP-dependent protein kinase.
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]
      Reaction:
1. L-seryl-[protein] + ATP = O-phospho-L-seryl-[protein] + ADP + H+
2. L-threonyl-[protein] + ATP = O-phospho-L-threonyl-[protein] + ADP + H+
L-seryl-[protein]
+ ATP
= O-phospho-L-seryl-[protein]
Bound ligand (Het Group name = QNI)
matches with 42.42% similarity
+ ADP
+ H(+)
L-threonyl-[protein]
+ ATP
= O-phospho-L-threonyl-[protein]
Bound ligand (Het Group name = QNI)
matches with 42.42% similarity
+ ADP
+ H(+)
Molecule diagrams generated from .mol files obtained from the KEGG ftp site

 

 
    reference    
 
 
DOI no: 10.1016/j.bmc.2013.07.021 Bioorg Med Chem Lett 21:5707-5724 (2013)
PubMed id: 23920481  
 
 
Synthesis and evaluation of heteroaryl substituted diazaspirocycles as scaffolds to probe the ATP-binding site of protein kinases.
C.E.Allen, C.L.Chow, J.J.Caldwell, I.M.Westwood, R.L.van Montfort, I.Collins.
 
  ABSTRACT  
 
With the success of protein kinase inhibitors as drugs to target cancer, there is a continued need for new kinase inhibitor scaffolds. We have investigated the synthesis and kinase inhibition of new heteroaryl-substituted diazaspirocyclic compounds that mimic ATP. Versatile syntheses of substituted diazaspirocycles through ring-closing metathesis were demonstrated. Diazaspirocycles directly linked to heteroaromatic hinge binder groups provided ligand efficient inhibitors of multiple kinases, suitable as starting points for further optimization. The binding modes of representative diazaspirocyclic motifs were confirmed by protein crystallography. Selectivity profiles were influenced by the hinge binder group and the interactions of basic nitrogen atoms in the scaffold with acidic side-chains of residues in the ATP pocket. The introduction of more complex substitution to the diazaspirocycles increased potency and varied the selectivity profiles of these initial hits through engagement of the P-loop and changes to the spirocycle conformation, demonstrating the potential of these core scaffolds for future application to kinase inhibitor discovery.
 

 

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