1E2K

Kinetics and crystal structure of the wild-type and the engineered Y101F mutant of Herpes simplex virus type 1 thymidine kinase interacting with (North)-methanocarba-thymidine


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.252
  • R-Value Work: 0.209

Literature

Macromolecules
Sequence Display for 1E2K

Classification: TRANSFERASE

Total Structure Weight: 72254.83

Macromolecule Entities
Molecule Chains Length Organism Details
THYMIDINE KINASE A, B 331 Human alphaherpesvirus 1 EC#: 2.7.1.21 IUBMB
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
TMC
Query on TMC

A, B 1-[4-HYDROXY-5-(HYDROXYMETHYL)BICYCLO[3.1.0]HEX- 2-YL]-5-METHYLPYRIMIDINE-2,4(1H,3H)-DIONE
(N)-METHANOCARBA-THYMIDINE (Synonym)
C12 H16 N2 O4
NOWRLNPOENZFHP-ARHDFHRDSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
TMC N/A in BindingDB
Ki: 11400 nM  BindingMOAD
Ki: 11400 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.252
  • R-Value Work: 0.209
  • Space Group: C 2 2 21

Unit Cell:

Length (Å) Angle (°)
a = 114.00 α = 90.00
b = 117.70 β = 90.00
c = 108.20 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2000-05-23
  • Released Date: 2000-08-19
  • Deposition author(s): Vogt, J., Scapozza, L., Schulz, G.E.

Revision History

  • Version 1_0: 2000-08-19

    Type: Initial release

  • Version 1_1: 2011-05-08

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Version format compliance