2ZVJ

Crystal structures of rat Catechol-O-Methyltransferase complexed with coumarine-based inhibitor

Structural Biology Knowledgebase: 2ZVJ SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.286
  • R-Value Work: 0.211

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2ZVJ

Classification: TRANSFERASE

Total Structure Weight: 25593.65

Macromolecule Entities
Molecule Chains Length Organism Details
Catechol O-methyltransferase A 223 Rattus norvegicus EC#: 2.1.1.6 IUBMB
Fragment: UNP residues 44-264
Gene Name(s): Comt
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A S-ADENOSYLMETHIONINE
C15 H22 N6 O5 S
MEFKEPWMEQBLKI-FCKMPRQPSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
KOM
Query on KOM

A 7,8-dihydroxy-4-phenyl-2H-chromen-2-one
4-phenyl-7,8-dihydroxycoumarine (Synonym)
C15 H10 O4
JRVIIPJSVKTPBK-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
KOM N/A in BindingDB
N/A in BindingMoad
IC50: 1800 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.286
  • R-Value Work: 0.211
  • Space Group: P 32 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 50.45 α = 90.00
b = 50.45 β = 90.00
c = 167.63 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-11-07
  • Released Date: 2009-01-06
  • Deposition author(s): Tsuji, E.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4