4IFG

Crystal structure of TgCDPK1 with inhibitor bound

• PDB DOI: https://doi.org/10.2210/pdb4IFG/pdb

• Classification: TRANSFERASE/TRANSFERASE INHIBITOR
• Organism(s): Toxoplasma gondii
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2012-12-14 Released: 2014-04-16 
• Deposition Author(s): El Bakkouri, M., Tempel, W., Crandall, I., Massad, T., Loppnau, P., Graslund, S., Bountra, C., Arrowsmith, C.H., Edwards, A.M., Kain, K., Hui, R., Structural Genomics Consortium (SGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.11 Å
• R-Value Free: 0.266 
• R-Value Work: 0.210 
• R-Value Observed: 0.213 

Literature

Crystal structure of TgCDPK1 with inhibitor bound

El Bakkouri, M., Tempel, W., Crandall, I., Massad, T., Loppnau, P., Graslund, S., Bountra, C., Arrowsmith, C.H., Edwards, A.M., Kain, K., Hui, R., Structural Genomics Consortium (SGC)

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 57.77 kDa 
• Atom Count: 3,713 
• Modelled Residue Count: 452 
• Deposited Residue Count: 507 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Calmodulin-domain protein kinase 1	A	507	Toxoplasma gondii	Mutation(s): 0  Gene Names: CDPK1, TGGT1_059880, TGVEG_042030 EC: 2.7.11.17
UniProt
Find proteins for Q9BJF5 (Toxoplasma gondii) Explore Q9BJF5  Go to UniProtKB:  Q9BJF5

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
1E8	B [auth A]	1-{(3R)-3-[4-amino-3-(4-phenoxyphenyl)-1H-pyrazolo[3,4-d]pyrimidin-1-yl]piperidin-1-yl}prop-2-en-1-one C25 H24 N6 O2 XYFPWWZEPKGCCK-GOSISDBHSA-N
UNX	C [auth A]	UNKNOWN ATOM OR ION X

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.11 Å
• R-Value Free: 0.266 
• R-Value Work: 0.210 
• R-Value Observed: 0.213 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 48.397	α = 90
b = 72.778	β = 101.66
c = 67.085	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
JBluIce-EPICS	data collection

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-04-16 
Deposition Author(s): El Bakkouri, M., Tempel, W., Crandall, I., Massad, T., Loppnau, P., Graslund, S., Bountra, C., Arrowsmith, C.H., Edwards, A.M., Kain, K., Hui, R., Structural Genomics Consortium (SGC)

Revision History  

• Version 1.0: 2014-04-16
  Type: Initial release
  
• Version 1.1: 2015-03-11
  Changes: Non-polymer description
• Version 1.2: 2017-11-15
  Changes: Refinement description
• Version 1.3: 2024-02-28
  Changes: Data collection, Database references, Derived calculations, Structure summary