3V5P

Calcium-Dependent Protein Kinase 1 from Toxoplasma gondii (TgCDPK1) in complex with inhibitor UW1288

Structural Biology Knowledgebase: 3V5P SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.259
  • R-Value Work: 0.208

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3V5P

Classification: TRANSFERASE / TRANSFERASE INHIBITOR

Total Structure Weight: 55579.94

Macromolecule Entities
Molecule Chains Length Organism Details
Calmodulin-domain protein kinase 1 A 484 Toxoplasma gondii EC#: 2.7.11.17 IUBMB
Fragment: UNP residues 30-507
Gene Name(s): CDPK1

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
C88
Query on C88

A 3-(4-methoxy-3-methylphenyl)-1-(piperidin- 4-ylmethyl)-1H-pyrazolo[3,4-d]pyrimidin-4- amine
C19 H24 N6 O
MQULVMDBNSSIMR-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
C88 N/A in BindingDB
Ki: 11 nM  BindingMOAD
Ki: 1.1 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.259
  • R-Value Work: 0.208
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 48.16 α = 90.00
b = 73.51 β = 100.28
c = 66.77 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-12-16
  • Released Date: 2012-03-14
  • Deposition author(s): Merritt, E.A., Larson, E.T.

Revision History

  • 2012-04-18
    Type: Citation | Details: Citation update