Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A 

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

Macromolecule Content

• Total Structure Weight: 25670.80 
• Atom Count: 1764 
• Residue Count: 221 
• Unique protein chains: 1

3S68

Rat COMT in complex with SAM and Tolcapone at 1.85A, P3221, Rfree=22.0

• DOI: 10.2210/pdb3S68/pdb

• Classification: TRANSFERASE/TRANSFERASE INHIBITOR
• Organism(s): Rattus norvegicus
• Expression System: Escherichia coli


• Deposited: 2011-05-25 Released: 2012-02-01 
• Deposition Author(s): Ehler, A., Schlatter, D., Stihle, M., Benz, J., Rudolph, M.G.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free: 0.217 
• R-Value Work: 0.168 

Literature

Catechol-O-methyltransferase in complex with substituted 3'-deoxyribose bisubstrate inhibitors

Ellermann, M., Lerner, C., Burgy, G., Ehler, A., Bissantz, C., Jakob-Roetne, R., Paulini, R., Allemann, O., Tissot, H., Grunstein, D., Stihle, M., Diederich, F., Rudolph, M.G.

(2012) Acta Crystallogr.,Sect.D 68: 253-260

• PubMed: 22349227 
• DOI: 10.1107/S0907444912001138
• Primary Citation of Related Structures:  
  3U81, 3R6T, 3NWE, 3NWB


• PubMed Abstract: 
  

The biological activity of catechol neurotransmitters such as dopamine in the synapse is modulated by transporters and enzymes. Catechol-O-methyltransferase (COMT; EC 2.1.1.6) inactivates neurotransmitters by catalyzing the transfer of a methyl group from S-adenosylmethionine to catechols in the presence of Mg²⁺. This pathway also inactivates L-DOPA, the standard therapeutic for Parkinson's disease. Depletion of catechol neurotransmitters in the prefrontal cortex has been linked to schizophrenia. The inhibition of COMT therefore promises improvements in the treatment of these diseases. The concept of bisubstrate inhibitors for COMT has been described previously. Here, ribose-modified bisubstrate inhibitors were studied. Three high-resolution crystal structures of COMT in complex with novel ribose-modified bisubstrate inhibitors confirmed the predicted binding mode but displayed subtle alterations at the ribose-binding site. The high affinity of the inhibitors can be convincingly rationalized from the structures, which document the possibility of removing and/or replacing the ribose 3'-hydroxyl group and provide a framework for further inhibitor design.

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Organizational Affiliation: 

Laboratorium für Organische Chemie, ETH Zürich, Hönggerberg, HCI, CH-8093 Zürich, Switzerland.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Catechol O-methyltransferase	A	221	Rattus norvegicus	Mutation(s): 0  Gene Names: Comt EC: 2.1.1.6
Find proteins for P22734 (Rattus norvegicus) Go to UniProtKB:  P22734

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
SO4	A	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
CL	A	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M
TCW	A	Tolcapone (3,4-dihydroxy-5-nitrophenyl)(4-methylphenyl)methanone C14 H11 N O5 MIQPIUSUKVNLNT-UHFFFAOYSA-N
MG	A	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N
SAM	A	S-ADENOSYLMETHIONINE C15 H22 N6 O5 S MEFKEPWMEQBLKI-FCKMPRQPSA-N

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
TCW	IC50: 2.2 - 2200 nM (100) BINDINGDB
TCW	IC50: 2.2 nM PDBBIND

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free: 0.217 
• R-Value Work: 0.168 
• Space Group: P 3₂ 2 1

Unit Cell:

Length (Å)	Angle (°)
a = 50.604	α = 90.00
b = 50.604	β = 90.00
c = 168.584	γ = 120.00

Software Package:

Software Name	Purpose
SADABS	data scaling
PHENIX	refinement
XDS	data reduction
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2011-05-25 
• Released Date: 2012-02-01 
• Deposition Author(s): Ehler, A., Schlatter, D., Stihle, M., Benz, J., Rudolph, M.G.

Revision History 

• Version 1.0: 2012-02-01
  Type: Initial release
• Version 1.1: 2012-02-22
  Type: Database references
• Version 1.2: 2012-04-11
  Type: Database references
• Version 1.3: 2012-05-23
  Type: Structure summary
• Version 1.4: 2017-11-08
  Type: Refinement description