Biological Assembly 1  

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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: 62564.65 
• Atom Count: 4404 
• Residue Count: 528 
• Unique protein chains: 1

2KCE

BINDING OF THE ANTICANCER DRUG ZD1694 TO E. COLI THYMIDYLATE SYNTHASE: ASSESSING SPECIFICITY AND AFFINITY

• DOI: 10.2210/pdb2KCE/pdb

• Classification: METHYLTRANSFERASE
• Organism(s): Escherichia coli (strain K12)
• Expression System: Escherichia coli


• Deposited: 1997-06-09 Released: 1997-11-19 
• Deposition Author(s): Rutenber, E.E., Stroud, R.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.2 Å

Literature

Binding of the anticancer drug ZD1694 to E. coli thymidylate synthase: assessing specificity and affinity.

Rutenber, E.E., Stroud, R.M.

(1996) Structure 4: 1317-1324

• PubMed: 8939755 


• PubMed Abstract: 
  

Thymidylate synthase (TS) catalyzes the reductive methylation of deoxyuridine monophosphate (dUMP) by 5, 10-methylenetetrahydrofolate (CH2H4folate) to form deoxythymidine monophosphate (dTMP) and dihydrofolate (H2folate). The essential role of TS in the cell life cycle makes it an attractive target for the development of substrate and cofactor-based inhibitors that may find efficacy as anticancer and antiproliferative drugs. Antifolates that compete specifically with the binding of CH2H4 folate include the cofactor analog CB3717 (10-propargyl-5,8-dideazafolate). However, the development of potent cofactor analog inhibitors of TS, such as CB3717, as drugs has been slowed by their toxicity, which often becomes apparent as hepatic and renal toxicity mediated by the specific chemistry of the compound. Attempts to abolish toxicity in human patients while preserving potency against the target enzyme, have led to the development of ZD1694, which has already shown significant activity against colorectal tumours.

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Organizational Affiliation: 

Department of Biochemistry and Biophysics, University of California at San Francisco, 94143-0448, USA. [e-mail]

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
THYMIDYLATE SYNTHASE	A, B	264	Escherichia coli (strain K12)	Mutation(s): 0  Gene Names: thyA EC: 2.1.1.45
Find proteins for P0A884 (Escherichia coli (strain K12)) Go to UniProtKB:  P0A884

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
D16	A, B	TOMUDEX ZD1694; Raltitrexed C21 H22 N4 O6 S IVTVGDXNLFLDRM-HNNXBMFYSA-N
UMP	A, B	2'-DEOXYURIDINE 5'-MONOPHOSPHATE DUMP C9 H13 N2 O8 P JSRLJPSBLDHEIO-SHYZEUOFSA-N

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
D16	Ki: 670 nM BINDINGMOAD
D16	Ki: 670 nM PDBBIND

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.2 Å
• Space Group: P 6₃

Unit Cell:

Length (Å)	Angle (°)
a = 126.800	α = 90.00
b = 126.800	β = 90.00
c = 67.560	γ = 120.00

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1997-06-09 
• Released Date: 1997-11-19 
• Deposition Author(s): Rutenber, E.E., Stroud, R.M.

Revision History 

• Version 1.0: 1997-11-19
  Type: Initial release
• Version 1.1: 2008-03-24
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance
• Version 1.3: 2012-10-10
  Type: Non-polymer description