3ZM9

The mechanism of allosteric coupling in choline kinase a1 revealed by a rationally designed inhibitor

Structural Biology Knowledgebase: 3ZM9 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.229
  • R-Value Work: 0.201

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3ZM9

Classification: TRANSFERASE

Total Structure Weight: 90895.09

Macromolecule Entities
Molecule Chains Length Organism Details
CHOLINE KINASE ALPHA A, B 383 Homo sapiens EC#: 2.7.1.32 IUBMB
Fragment: RESIDUES 75-457
Gene Name(s): CHKA Gene View CHK CKI

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

A, B 1-(4-(4-(4-((6-amino-9H-purin-9-yl)methyl)phenyl)butyl)benzyl)- 4- (dimethylamino)pyridinium
C30 H34 N7
NKYSQEHAAOKBTL-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
QMQ N/A in BindingDB
N/A in BindingMoad
Kd: 38 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.229
  • R-Value Work: 0.201
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 55.75 α = 90.00
b = 121.21 β = 90.00
c = 131.86 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-02-06
  • Released Date: 2013-02-27
  • Deposition author(s): Sahun-Roncero, M., Rubio-Ruiz, B., Saladino, G., Conejo-Garcia, A., Espinosa, A., Velazquez-Campoy, A., Gervasio, F.L., Entrena, A., Hurtado-Guerrero, R.

Revision History

  • 2013-05-01
    Type: Citation | Details: JRNL
  • 2013-04-17
    Type: Refinement description | Details: REMARK 3
  • 2013-03-13
    Type: Citation | Details: JRNL