Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 91.06 kDa 
• Atom Count: 6119 
• Residue Count: 690 
• Unique protein chains: 1

2CKO

Crystal structure of Human Choline Kinase alpha 2

• DOI: 10.2210/pdb2CKO/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2006-04-20 Released: 2006-10-04 
• Deposition Author(s): Malito, E., Lavie, A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free: 0.256 
• R-Value Work: 0.199 
• R-Value Observed: 0.204 

Literature

Elucidation of Human Choline Kinase Crystal Structures in Complex with the Products Adp or Phosphocholine.

Malito, E., Sekulic, N., Too, W.C., Konrad, M., Lavie, A.

(2006) J Mol Biol 364: 136

• PubMed: 17007874 
• DOI: 10.1016/j.jmb.2006.08.084
• Primary Citation of Related Structures:  
  2CKQ, 2CKP, 2CKO


• PubMed Abstract: 
  

Choline kinase, responsible for the phosphorylation of choline to phosphocholine as the first step of the CDP-choline pathway for the biosynthesis of phosphatidylcholine, has been recognized as a new target for anticancer therapy. Crystal structures of human choline kinase in its apo, ADP and phosphocholine-bound complexes, respectively, reveal the molecular details of the substrate binding sites. ATP binds in a cavity where residues from both the N and C-terminal lobes contribute to form a cleft, while the choline-binding site constitutes a deep hydrophobic groove in the C-terminal domain with a rim composed of negatively charged residues. Upon binding of choline, the enzyme undergoes conformational changes independently affecting the N-terminal domain and the ATP-binding loop. From this structural analysis and comparison with other kinases, and from mutagenesis data on the homologous Caenorhabditis elegans choline kinase, a model of the ternary ADP.phosphocholine complex was built that reveals the molecular basis for the phosphoryl transfer activity of this enzyme.

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Organizational Affiliation: 

Department of Biochemistry and Molecular Genetics, University of Illinois at Chicago, Chicago, IL 60607, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CHOLINE KINASE ALPHA	A, B	390	Homo sapiens	Mutation(s): 0  Gene Names: CHKA, CHK, CKI EC: 2.7.1.32 (PDB Primary Data), 2.7.1.82 (UniProt)
Find proteins for P35790 (Homo sapiens) Explore P35790  Go to UniProtKB:  P35790
NIH Common Fund Data Resources
PHAROS:  P35790 GTEx:  ENSG00000110721

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
DTT	A, B	2,3-DIHYDROXY-1,4-DITHIOBUTANE C4 H10 O2 S2 VHJLVAABSRFDPM-IMJSIDKUSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free: 0.256 
• R-Value Work: 0.199 
• R-Value Observed: 0.204 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 56.18	α = 90
b = 122.82	β = 90
c = 132.17	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2006-04-20 
• Released Date: 2006-10-04 
Deposition Author(s): Malito, E., Lavie, A.

Revision History 

• Version 1.0: 2006-10-04
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance