Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Macromolecule Content

• Total Structure Weight: 25.01 kDa 
• Atom Count: 1826 
• Residue Count: 212 
• Unique protein chains: 1

2ZLB

Crystal structure of APO form of rat catechol-O-methyltransferase

• DOI: 10.2210/pdb2ZLB/pdb

• Classification: TRANSFERASE
• Organism(s): Rattus norvegicus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2008-04-04 Released: 2008-10-07 
• Deposition Author(s): Tsuji, E.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.237 
• R-Value Work: 0.179 
• R-Value Observed: 0.182 

Literature

Crystal structures of the Apo and Holo form of rat catechol-O-methyltransferase

Tsuji, E., Okazaki, K., Isaji, M., Takeda, K.

(2009) J Struct Biol 165: 133-139

• PubMed: 19111934 
• DOI: 10.1016/j.jsb.2008.11.012
• Primary Citation of Related Structures:  
  2ZLB, 2ZTH


• PubMed Abstract: 
  

Catechol-O-methyltransferase (COMT, EC 2.1.1.6) is a monomeric enzyme that catalyzes the transfer of a methyl group from S-adenosyl-l-methionine (AdoMet) to the phenolic oxygen of substituted catechols. Although the inhibitor recognition pattern and AdoMet site have already been studied crystallographically, structural information on the catalytic cycle of COMT has not yet been obtained. In this study, comparison of the co-factor and inhibitor-bound structures revealed that the Apo form of COMT shows a conformational change and there was no cleft corresponding to the AdoMet-binding site; the overall structure was partially open form and the substrate recognition site was not clearly defined. The Holo form of COMT was similar to the quaternary structure except for the beta6-beta7 and alpha2-alpha3 ligand recognition loops. These conformational changes provide a deeper insight into the structural events occurring in reactions catalyzed by AdoMet.

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Organizational Affiliation: 

Molecular Design Research, R&D Kissei Pharmaceutical Co., Ltd. 4365-1 Kashiwabara, Hotaka, Azumino-city, Nagano 399-8304, Japan. [e-mail]

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Catechol O-methyltransferase	A	223	Rattus norvegicus	Mutation(s): 0  Gene Names: Comt EC: 2.1.1.6
Find proteins for P22734 (Rattus norvegicus) Explore P22734  Go to UniProtKB:  P22734

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	A	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.237 
• R-Value Work: 0.179 
• R-Value Observed: 0.182 
• Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 56.262	α = 90
b = 56.262	β = 90
c = 117.483	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
BSS	data collection
MOSFLM	data reduction
SCALA	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2008-04-04 
• Released Date: 2008-10-07 
Deposition Author(s): Tsuji, E.

Revision History 

• Version 1.0: 2008-10-07
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance