Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 80.57 kDa 
• Atom Count: 4953 
• Residue Count: 612 
• Unique protein chains: 1

1QHI

HERPES SIMPLEX VIRUS TYPE-I THYMIDINE KINASE COMPLEXED WITH A NOVEL NON-SUBSTRATE INHIBITOR, 9-(4-HYDROXYBUTYL)-N2-PHENYLGUANINE

• DOI: 10.2210/pdb1QHI/pdb

• Classification: TRANSFERASE
• Organism(s): Human alphaherpesvirus 1 strain 17
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 1999-05-12 Released: 1999-07-09 
• Deposition Author(s): Bennett, M.S., Wien, F., Champness, J.N., Batuwangala, T., Rutherford, T., Summers, W.C., Sun, H., Wright, G., Sanderson, M.R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.291 
• R-Value Work: 0.227 
• R-Value Observed: 0.227 

Literature

Structure to 1.9 A resolution of a complex with herpes simplex virus type-1 thymidine kinase of a novel, non-substrate inhibitor: X-ray crystallographic comparison with binding of aciclovir.

Bennett, M.S., Wien, F., Champness, J.N., Batuwangala, T., Rutherford, T., Summers, W.C., Sun, H., Wright, G., Sanderson, M.R.

(1999) FEBS Lett 443: 121-125

• PubMed: 9989588 
• DOI: 10.1016/s0014-5793(98)01619-6
• Primary Citation of Related Structures:  
  1QHI, 2KI5


• PubMed Abstract: 
  

Treatment of herpes infections with nucleoside analogues requires as an initial step the activation of the compounds by thymidine kinase. As an aid to developing more effective chemotherapy, both for treatment of recurrent herpes infection and in gene therapy systems where thymidine kinase is expressed, two high-resolution X-ray structures of thymidine kinase have been compared: one with the relatively poor substrate aciclovir (Zovirax), the other with a synthetic inhibitor having an N2-substituted guanine. Both compounds have similar binding modes in spite of their size difference and apparently distinct ligand properties.

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Organizational Affiliation: 

Division of Biomedical Sciences, Randall Institute, King's College, London, UK.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN (THYMIDINE KINASE)	A, B	366	Human alphaherpesvirus 1 strain 17	Mutation(s): 0  Gene Names: TK, UL23 EC: 2.7.1.21
Find proteins for P03176 (Human herpesvirus 1 (strain 17)) Explore P03176  Go to UniProtKB:  P03176

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BPG	A, B	9-(4-HYDROXYBUTYL)-N2-PHENYLGUANINE C15 H17 N5 O2 JHBXNPBKSPYOFT-UHFFFAOYSA-N
SO4	A, B	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
BPG	IC50:  160   nM  BindingDB
BPG	IC50:  1300   nM  BindingDB

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.291 
• R-Value Work: 0.227 
• R-Value Observed: 0.227 
• Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 113.4	α = 90
b = 118	β = 90
c = 109	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	refinement
DENZO	data reduction
SCALEPACK	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1999-05-12 
• Released Date: 1999-07-09 
Deposition Author(s): Bennett, M.S., Wien, F., Champness, J.N., Batuwangala, T., Rutherford, T., Summers, W.C., Sun, H., Wright, G., Sanderson, M.R.

Revision History 

• Version 1.0: 1999-07-09
  Type: Initial release
  
• Version 1.1: 2008-04-26
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance