3FI8 | pdb_00003fi8

Crystal structure of choline kinase from Plasmodium Falciparum, PF14_0020

• PDB DOI: https://doi.org/10.2210/pdb3FI8/pdb

• Classification: TRANSFERASE
• Organism(s): Plasmodium falciparum 3D7
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2008-12-11 Released: 2009-02-10 
• Deposition Author(s): Wernimont, A.K., Pizarro, J.C., Artz, J.D., Amaya, M.F., Xiao, T., Lew, J., Wasney, G., Senesterra, G., Kozieradzki, I., Cossar, D., Vedadi, M., Schapira, M., Bochkarev, A., Arrowsmith, C.H., Bountra, C., Weigelt, J., Edwards, A.M., Hui, R., Hills, T., Structural Genomics Consortium (SGC)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 
  0.265 (Depositor), 0.265 (DCC) 
• R-Value Work: 
  0.197 (Depositor), 0.193 (DCC) 
• R-Value Observed: 
  0.200 (Depositor) 

Literature

Crystal structure of choline kinase from Plasmodium Falciparum, PF14_0020

Wernimont, A.K., Pizarro, J.C., Artz, J.D., Amaya, M.F., Xiao, T., Lew, J., Wasney, G., Senesterra, G., Kozieradzki, I., Cossar, D., Vedadi, M., Schapira, M., Bochkarev, A., Arrowsmith, C.H., Bountra, C., Weigelt, J., Edwards, A.M., Hui, R., Hills, T.

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: 43.79 kDa 
• Atom Count: 2,964 
• Modeled Residue Count: 339 
• Deposited Residue Count: 362 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Choline kinase	A	362	Plasmodium falciparum 3D7	Mutation(s): 0  Gene Names: PF14_0020 EC: 2.7.1.32
UniProt
Find proteins for Q8IM71 (Plasmodium falciparum (isolate 3D7)) Explore Q8IM71  Go to UniProtKB:  Q8IM71

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ADP	B [auth A]	ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N
OPE	D [auth A], E [auth A]	PHOSPHORIC ACID MONO-(2-AMINO-ETHYL) ESTER C2 H8 N O4 P SUHOOTKUPISOBE-UHFFFAOYSA-N
MG	C [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free:  0.265 (Depositor), 0.265 (DCC) 
• R-Value Work:  0.197 (Depositor), 0.193 (DCC) 
• R-Value Observed: 0.200 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 58.38	α = 90
b = 64.556	β = 90
c = 91.557	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data collection

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-02-10 
Deposition Author(s): Wernimont, A.K., Pizarro, J.C., Artz, J.D., Amaya, M.F., Xiao, T., Lew, J., Wasney, G., Senesterra, G., Kozieradzki, I., Cossar, D., Vedadi, M., Schapira, M., Bochkarev, A., Arrowsmith, C.H., Bountra, C., Weigelt, J., Edwards, A.M., Hui, R., Hills, T., Structural Genomics Consortium (SGC)

Revision History  

• Version 1.0: 2009-02-10
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2017-11-01
  Changes: Refinement description
• Version 1.3: 2024-02-21
  Changes: Data collection, Database references, Derived calculations