4M84

Calcium-Dependent Protein Kinase 1 from Toxoplasma gondii (TgCDPK1) in complex with inhibitor UW1455


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.998 Å
  • R-Value Free: 0.257 
  • R-Value Work: 0.198 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Potent and selective inhibitors of CDPK1 from T. gondii and C. parvum based on a 5-aminopyrazole-4-carboxamide scaffold.

Zhang, Z.Ojo, K.K.Vidadala, R.Huang, W.Geiger, J.A.Scheele, S.Choi, R.Reid, M.C.Keyloun, K.R.Rivas, K.Siddaramaiah, L.K.Comess, K.M.Robinson, K.P.Merta, P.J.Kifle, L.Hol, W.G.Parsons, M.Merritt, E.A.Maly, D.J.Verlinde, C.L.Van Voorhis, W.C.Fan, E.

(2014) ACS Med Chem Lett 5: 40-44

  • DOI: 10.1021/ml400315s
  • Primary Citation of Related Structures:  
  • Also Cited By: 4WG5, 4WG4, 4WG3

  • PubMed Abstract: 
  • 5-Aminopyrazole-4-carboxamide was used as an alternative scaffold to substitute for the pyrazolopyrimidine of a known "bumped kinase inhibitor" to create selective inhibitors of calcium-dependent protein kinase-1 from both Toxoplasma gondii and Crypt ...

    5-Aminopyrazole-4-carboxamide was used as an alternative scaffold to substitute for the pyrazolopyrimidine of a known "bumped kinase inhibitor" to create selective inhibitors of calcium-dependent protein kinase-1 from both Toxoplasma gondii and Cryptosporidium parvum. Compounds with low nanomolar inhibitory potencies against the target enzymes were obtained. The most selective inhibitors also exhibited submicromolar activities in T. gondii cell proliferation assays and were shown to be non-toxic to mammalian cells.


    Related Citations: 
    • Multiple determinants for selective inhibition of apicomplexan calcium-dependent protein kinase CDPK1.
      Larson, E.T.,Ojo, K.K.,Murphy, R.C.,Johnson, S.M.,Zhang, Z.,Kim, J.E.,Leibly, D.J.,Fox, A.M.,Reid, M.C.,Dale, E.J.,Perera, B.G.,Kim, J.,Hewitt, S.N.,Hol, W.G.,Verlinde, C.L.,Fan, E.,Van Voorhis, W.C.,Maly, D.J.,Merritt, E.A.
      (2012) J.Med.Chem. 55: 2803
    • Toxoplasma gondii calcium-dependent protein kinase 1 is a target for selective kinase inhibitors.
      Ojo, K.K.,Larson, E.T.,Keyloun, K.R.,Castaneda, L.J.,Derocher, A.E.,Inampudi, K.K.,Kim, J.E.,Arakaki, T.L.,Murphy, R.C.,Zhang, L.,Napuli, A.J.,Maly, D.J.,Verlinde, C.L.,Buckner, F.S.,Parsons, M.,Hol, W.G.,Merritt, E.A.,Van Voorhis, W.C.
      (2010) Nat.Struct.Mol.Biol. 17: 602


    Organizational Affiliation

    Department of Biochemistry, University of Washington, Seattle, WA 98195, United States.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Calmodulin-domain protein kinase 1
A
484Toxoplasma gondiiMutation(s): 0 
Gene Names: CDPK1
Find proteins for Q9BJF5 (Toxoplasma gondii)
Go to UniProtKB:  Q9BJF5
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
21E
Query on 21E

Download SDF File 
Download CCD File 
A
5-amino-1-tert-butyl-3-(quinolin-2-yl)-1H-pyrazole-4-carboxamide
C17 H19 N5 O
YKVANMRHVMVLJX-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
21EIC50: 49 nM BINDINGMOAD
21EIC50: 49 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.998 Å
  • R-Value Free: 0.257 
  • R-Value Work: 0.198 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 48.120α = 90.00
b = 73.180β = 99.77
c = 66.010γ = 90.00
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
Blu-Icedata collection
PHASERphasing
MOSFLMdata reduction
REFMACrefinement
SCALAdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2013-08-12 
  • Released Date: 2013-10-02 
  • Deposition Author(s): Merritt, E.A.

Revision History 

  • Version 1.0: 2013-10-02
    Type: Initial release
  • Version 1.1: 2014-02-05
    Type: Database references
  • Version 1.2: 2014-03-05
    Type: Database references