4IVP

Crystal structure of thymidine kinase from herpes simplex virus type 1 in complex with IN51/20

Structural Biology Knowledgebase: 4IVP SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.214
  • R-Value Work: 0.178

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4IVP

Classification: TRANSFERASE

Total Structure Weight: 72367.44

Macromolecule Entities
Molecule Chains Length Organism Details
Thymidine kinase A, B 331 Human herpesvirus 1 EC#: 2.7.1.21 IUBMB
Fragment: UNP residues 46-376
Gene Name(s): TK UL23

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
I51
Query on I51

A, B 6-[3-hydroxy-2-(hydroxymethyl)prop-1-en-1- yl]-5-methylpyrimidine-2,4(1H,3H)-dione
C9 H12 N2 O4
IYYCMOUEXPXAQM-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: 2.1 Å
  • R-Value Free: 0.214
  • R-Value Work: 0.178
  • Space Group: C 2 2 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 114.00 α = 90.00
b = 117.83 β = 90.00
c = 108.30 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-01-23
  • Released Date: 2013-02-06
  • Deposition author(s): Pernot, L., Novakovic, I., Westermaier, Y., Perozzo, R., Raic-Malic, S., Scapozza, L.

Revision History

  • 2013-10-02
    Type: Experimental method | Details: corrected plasmid name
  • 2013-10-02
    Type: Entry authorship | Details: Added entry author