1OE0

CRYSTAL STRUCTURE OF DROSOPHILA DEOXYRIBONUCLEOSIDE KINASE IN COMPLEX WITH DTTP

Structural Biology Knowledgebase: 1OE0 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.242
  • R-Value Work: 0.220

Literature

Macromolecules
Sequence Display for 1OE0

Classification: TRANSFERASE

Total Structure Weight: 109653.48

Macromolecule Entities
Molecule Chains Length Organism Details
DEOXYRIBONUCLEOSIDE KINASE A, B, C, D 230 Drosophila melanogaster EC#: 2.7.1.145 IUBMB
Fragment: TRUNCATION MUTANT, RESIDUES 1-230
Gene Name(s): dnk CG5452
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B, C, D THYMIDINE-5'-TRIPHOSPHATE
C10 H17 N2 O14 P3
NHVNXKFIZYSCEB-XLPZGREQSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B, C, D MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
TTP N/A in BindingDB
Ki: 5.3 nM  BindingMOAD
IC50: 6900 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.242
  • R-Value Work: 0.220
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 67.08 α = 90.00
b = 119.68 β = 92.85
c = 69.51 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-03-17
  • Released Date: 2003-10-23
  • Deposition author(s): Mikkelsen, N.E., Johansson, K., Karlsson, A., Knecht, W., Andersen, G., Piskur, J., Munch-Petersen, B., Eklund, H.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4