2XFN

Human monoamine oxidase B in complex with 2-(2-benzofuranyl)-2- imidazoline


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.190 
  • R-Value Work: 0.166 

wwPDB Validation 3D Report Full Report


This is version 1.6 of the entry. See complete history

Literature

Potentiation of ligand binding through cooperative effects in monoamine oxidase B.

Bonivento, D.Milczek, E.M.McDonald, G.R.Binda, C.Holt, A.Edmondson, D.E.Mattevi, A.

(2010) J. Biol. Chem. 285: 36849-36856

  • DOI: 10.1074/jbc.M110.169482
  • Primary Citation of Related Structures:  
  • Also Cited By: 2XFU

  • PubMed Abstract: 
  • Crystallographic and biochemical studies have been employed to identify the binding site and mechanism for potentiation of imidazoline binding in human monoamine oxidase B (MAO B). 2-(2-Benzofuranyl)-2-imidazoline (2-BFI) inhibits recombinant human M ...

    Crystallographic and biochemical studies have been employed to identify the binding site and mechanism for potentiation of imidazoline binding in human monoamine oxidase B (MAO B). 2-(2-Benzofuranyl)-2-imidazoline (2-BFI) inhibits recombinant human MAO B with a K(i) of 8.3 ± 0.6 μM, whereas tranylcypromine-inhibited MAO B binds 2-BFI with a K(d) of 9 ± 2 nM, representing an increase in binding energy Δ(ΔG) of -3.9 kcal/mol. Crystal structures show the imidazoline ligand bound in a site that is distinct from the substrate-binding cavity. Contributions to account for the increase in binding affinity upon tranylcypromine inhibition include a conformational change in the side chain of Gln(206) and a "closed conformation" of the side chain of Ile(199), forming a hydrophobic "sandwich" with the side chain of Ile(316) on each face of the benzofuran ring of 2-BFI. Data with the I199A mutant of human MAO B and failure to observe a similar binding potentiation with rat MAO B, where Ile(316) is replaced with a Val residue, support an allosteric mechanism where the increased binding affinity of 2-BFI results from a cooperative increase in H-bond strength through formation of a more hydrophobic milieu. These insights should prove valuable in the design of high affinity and specific reversible MAO B inhibitors.


    Organizational Affiliation

    Department of Genetics and Microbiology, University of Pavia, I-27100 Pavia PV, Italy.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Amine oxidase [flavin-containing] B
A, B
520Homo sapiensMutation(s): 0 
Gene Names: MAOB
EC: 1.4.3.4
Find proteins for P27338 (Homo sapiens)
Go to Gene View: MAOB
Go to UniProtKB:  P27338
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
FAD
Query on FAD

Download SDF File 
Download CCD File 
A, B
FLAVIN-ADENINE DINUCLEOTIDE
C27 H33 N9 O15 P2
VWWQXMAJTJZDQX-UYBVJOGSSA-N
 Ligand Interaction
XCG
Query on XCG

Download SDF File 
Download CCD File 
A, B
2-(2-BENZOFURANYL)-2-IMIDAZOLINE
C11 H8 N2 O
VBFQIUOSXHUWCT-UHFFFAOYSA-N
 Ligand Interaction
C15
Query on C15

Download SDF File 
Download CCD File 
A, B
N-DODECYL-N,N-DIMETHYL-3-AMMONIO-1-PROPANESULFONATE
C17 H38 N O3 S
IZWSFJTYBVKZNK-UHFFFAOYSA-O
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
XCGKi: 8300 nM BINDINGMOAD
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.190 
  • R-Value Work: 0.166 
  • Space Group: C 2 2 2
Unit Cell:
Length (Å)Angle (°)
a = 131.544α = 90.00
b = 222.445β = 90.00
c = 86.365γ = 90.00
Software Package:
Software NamePurpose
REFMACrefinement
REFMACphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-10-06
    Type: Initial release
  • Version 1.1: 2011-06-09
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2017-12-20
    Type: Database references
  • Version 1.4: 2018-04-25
    Type: Data collection
  • Version 1.5: 2018-05-16
    Type: Data collection
  • Version 1.6: 2018-10-17
    Type: Data collection, Database references, Source and taxonomy, Structure summary