3F0T

Crystal structure of thymidine kinase from Herpes simplex virus type 1 in complex with N-methyl-DHBT

Structural Biology Knowledgebase: 3F0T SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.228
  • R-Value Work: 0.195

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3F0T

Classification: TRANSFERASE

Total Structure Weight: 72849.97

Macromolecule Entities
Molecule Chains Length Organism Details
Thymidine kinase A, B 332 Human herpesvirus 1 EC#: 2.7.1.21 IUBMB
Fragment: Residues 45-376
Gene Name(s): TK UL23
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B N-Methyl-6-(1,3-dihydroxy-isobutyl)thymine
4(1H,,5- dimethylpyrimidine-2 (Synonym)
C10 H16 N2 O4
FMPCUJIPAJPVKR-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.228
  • R-Value Work: 0.195
  • Space Group: C 2 2 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 113.00 α = 90.00
b = 117.36 β = 90.00
c = 107.76 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-10-26
  • Released Date: 2009-11-03
  • Deposition author(s): Pernot, L., Perozzo, R., Westermaier, Y., Martic, M., Ametamey, S., Scapozza, L.

Revision History

  • 2013-10-02
    Type: Entry authorship | Details: Added entry author
  • 2011-08-03
    Type: Citation | Details: Citation update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4