3NWB

Rat COMT in complex with a fluorinated desoxyribose-containing bisubstrate inhibitor avoids hydroxyl group

Structural Biology Knowledgebase: 3NWB SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.3 Å
  • R-Value Free: 0.164
  • R-Value Work: 0.132

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3NWB

Classification: TRANSFERASE / TRANSFERASE INHIBITOR

Total Structure Weight: 25745.06

Macromolecule Entities
Molecule Chains Length Organism Details
Catechol O-methyltransferase A 221 Rattus norvegicus EC#: 2.1.1.6 IUBMB
Fragment: soluble form, UNP residues 44-264
Gene Name(s): Comt
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
659
Query on 659

A N-[(E)-3-[(2R,3R,4S,5R)-3-fluoro-4-hydroxy- 5-[6-(methylamino)purin-9-yl]oxolan-2-yl]prop- 2-enyl]-5-(4-fluorophenyl)-2,3-dihydroxy- benzamide
C26 H24 F2 N6 O5
ZHVVVGDBOITDFN-UJYAWEMASA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NHE
Query on NHE

A 2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID
N-CYCLOHEXYLTAURINE; CHES (Synonym)
C8 H17 N O3 S
MKWKNSIESPFAQN-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
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 MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
659 N/A in BindingDB
IC50: 11 nM  BindingMOAD
IC50: 11 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.3 Å
  • R-Value Free: 0.164
  • R-Value Work: 0.132
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 50.39 α = 90.00
b = 55.35 β = 90.00
c = 79.36 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-07-09
  • Released Date: 2011-08-03
  • Deposition author(s): Ehler, A., Schlatter, D., Stihle, M., Benz, J., Rudolph, M.G.

Revision History

  • 2012-04-11
    Type: Citation | Details: Citation update
  • 2012-02-22
    Type: Citation | Details: Citation update