3ZNQ

IN VITRO AND IN VIVO INHIBITION OF HUMAN D-AMINO ACID OXIDASE: REGULATION OF D-SERINE CONCENTRATION IN THE BRAIN


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Free: 0.255 
  • R-Value Work: 0.199 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural, Kinetic, and Pharmacodynamic Mechanisms of D-Amino Acid Oxidase Inhibition by Small Molecules.

Hopkins, S.C.Heffernan, M.L.R.Saraswat, L.D.Bowen, C.A.Melnick, L.Hardy, L.W.Orsini, M.A.Allen, M.S.Koch, P.Spear, K.L.Foglesong, R.J.Soukri, M.Chytil, M.Fang, Q.K.Jones, S.W.Varney, M.A.Panatier, A.Oliet, S.H.R.Pollegioni, L.Piubelli, L.Molla, G.Nardini, M.Large, T.H.

(2013) J.Med.Chem. 56: 3710

  • DOI: 10.1021/jm4002583
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • We characterized the mechanism and pharmacodynamics of five structurally distinct inhibitors of d-amino acid oxidase. All inhibitors bound the oxidized form of human enzyme with affinity slightly higher than that of benzoate (Kd ≈ 2-4 μM). Stopped-fl ...

    We characterized the mechanism and pharmacodynamics of five structurally distinct inhibitors of d-amino acid oxidase. All inhibitors bound the oxidized form of human enzyme with affinity slightly higher than that of benzoate (Kd ≈ 2-4 μM). Stopped-flow experiments showed that pyrrole-based inhibitors possessed high affinity (Kd ≈ 100-200 nM) and slow release kinetics (k < 0.01 s(-1)) in the presence of substrate, while inhibitors with pendent aromatic groups altered conformations of the active site lid, as evidenced by X-ray crystallography, and showed slower kinetics of association. Rigid bioisosteres of benzoic acid induced a closed-lid conformation, had slower release in the presence of substrate, and were more potent than benzoate. Steady-state d-serine concentrations were described in a PK/PD model, and competition for d-serine sites on NMDA receptors was demonstrated in vivo. DAAO inhibition increased the spatiotemporal influence of glial-derived d-serine, suggesting localized effects on neuronal circuits where DAAO can exert a neuromodulatory role.


    Organizational Affiliation

    Sunovion Pharmaceuticals Inc., Marlborough, Massachusetts 01752, United States. seth.hopkins@sunovion.com




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
D-AMINO-ACID OXIDASE
A, B
347Homo sapiensMutation(s): 0 
Gene Names: DAO (DAMOX)
EC: 1.4.3.3
Find proteins for P14920 (Homo sapiens)
Go to Gene View: DAO
Go to UniProtKB:  P14920
Small Molecules
Ligands 2 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
SS8
Query on SS8

Download SDF File 
Download CCD File 
A
3-PHENETHYL-4H-FURO[3,2-B]PYRROLE-5-CARBOXYLIC ACID
C15 H11 N O3
VJXSERLPOOWZGU-SREVYHEPSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Free: 0.255 
  • R-Value Work: 0.199 
  • Space Group: P 32 2 1
Unit Cell:
Length (Å)Angle (°)
a = 84.471α = 90.00
b = 84.471β = 90.00
c = 188.672γ = 120.00
Software Package:
Software NamePurpose
BUSTERrefinement
MOLREPphasing
SCALEPACKdata scaling
HKLdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Revision History 

  • Version 1.0: 2013-05-15
    Type: Initial release
  • Version 1.1: 2013-05-22
    Type: Database references
  • Version 1.2: 2018-04-04
    Type: Data collection