3HVJ

Rat catechol O-methyltransferase in complex with a catechol-type, N6-propyladenine-containing bisubstrate inhibitor

Structural Biology Knowledgebase: 3HVJ SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.79 Å
  • R-Value Free: 0.235
  • R-Value Work: 0.183

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3HVJ

Classification: TRANSFERASE

Total Structure Weight: 50967.54

Macromolecule Entities
Molecule Chains Length Organism Details
Catechol O-methyltransferase A, B 221 Rattus norvegicus EC#: 2.1.1.6 IUBMB
Fragment: SOLUBLE FORM, UNP RESIDUES 44-264
Gene Name(s): Comt

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
705
Query on 705

A, B N-[(E)-3-[(2R,3S,4R,5R)-3,4-dihydroxy-5-(6- propylaminopurin-9-yl)oxolan-2-yl]prop-2- enyl]-5-(4-fluorophenyl)-2,3-dihydroxy-benzamide
C28 H29 F N6 O6
ZTSZMLSDNBUFMA-WIRSHZJASA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BTB
Query on BTB

A 2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL- PROPANE-1,3-DIOL
BIS-TRIS BUFFER (Synonym)
C8 H19 N O5
OWMVSZAMULFTJU-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
705 N/A in BindingDB
Ki: 2 nM  BindingMOAD
Ki: 2 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.79 Å
  • R-Value Free: 0.235
  • R-Value Work: 0.183
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 55.35 α = 90.00
b = 61.41 β = 90.00
c = 132.50 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-06-16
  • Released Date: 2009-10-13
  • Deposition author(s): Ehler, A., Schlatter, D., Stihle, M., Benz, J., Rudolph, M.G.

Revision History

  • 2012-08-08
    Type: Entry title | Details: TITLE update
  • 2012-08-08
    Type: Citation | Details: Citation update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4