4IVR

Crystal structure of thymidine kinase from herpes simplex virus type 1 in complex with IN52/10

Structural Biology Knowledgebase: 4IVR SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.257
  • R-Value Work: 0.196

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4IVR

Classification: TRANSFERASE

Total Structure Weight: 72231.39

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
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
N50
Query on N50

A, B 2-[(2,6-dimethoxy-5-methylpyrimidin-4-yl)methylidene]propane- 1,3-diol
C11 H16 N2 O4
YLFWDZOXQQHLDL-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: 2.4 Å
  • R-Value Free: 0.257
  • R-Value Work: 0.196
  • Space Group: C 2 2 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 113.04 α = 90.00
b = 115.13 β = 90.00
c = 108.07 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: Entry authorship | Details: Added entry author
  • 2013-10-02
    Type: Experimental method | Details: corrected plasmid name