11LH | pdb_000011lh

OgOGA IN COMPLEX WITH LIGAND 7


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.44 Å
  • R-Value Free: 
    0.301 (Depositor), 0.299 (DCC) 
  • R-Value Work: 
    0.216 (Depositor), 0.221 (DCC) 
  • R-Value Observed: 
    0.221 (Depositor) 

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 11LH

This is version 1.0 of the entry. See complete history

Literature

Discovery of 5‐Azaindole Inhibitors of O‐GlcNAcase for the Treatment of Alzheimer's Disease and Related Tauopathies.

Bouton, J.Bretteville, A.Tresadern, G.Shaffer, P.Austin, N.Buijnsters, P.Cedervall, E.P.Darville, N.Fonteyn, I.Leenaerts, J.Lamenca, C.M.Mertens, L.Peeters, D.Velter, A.I.Roosbroeck, Y.V.Ebneth, A.Bartolome, J.M.Trabanco, A.A.Oehlrich, D.

(2026) ACS Med Chem Lett 17: 1096-1105

  • DOI: https://doi.org/10.1021/acsmedchemlett.6c00017
  • Primary Citation Related Structures: 
    11LH, 11LI, 11LJ

  • PubMed Abstract: 

    Alzheimer's disease (AD) is a neurodegenerative disorder characterized by extracellular amyloid-β plaque accumulation and intracellular tau neurofibrillary tangles, with tau pathology correlating more closely with cognitive decline. Modulation of tau phosphorylation through the regulation of O-GlcNAcylation, a post-translational modification controlled by O-GlcNAcase (OGA), represents a promising therapeutic strategy. In this study, we report the optimization of a pyrimidine hit identified by high-throughput screening, leading to the discovery and optimization of a novel series of 5-azaindole-based OGA inhibitors. From this series, compound 24 was identified as an in vivo tool candidate that demonstrated a favorable pharmacokinetic profile and measurable brain exposure. Pharmacodynamic studies in murine models demonstrated that compound 24 induced a significant and transient elevation of brain O-GlcNAcylation levels, confirming the in vivo target engagement. These findings underscore the potential of 5-azaindole-based OGA inhibitors as a novel validated chemotype for modulation of O-GlcNAcylation.


  • Organizational Affiliation
    • Johnson & Johnson, Turnhoutseweg 30, Beerse 2340, Belgium.

Macromolecule Content 

  • Total Structure Weight: 50.55 kDa 
  • Atom Count: 3,530 
  • Modeled Residue Count: 438 
  • Deposited Residue Count: 449 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Protein O-GlcNAcase449Oceanicola granulosus HTCC2516Mutation(s): 0 
Gene Names: OG2516_04129
EC: 3.2.1.169
UniProt
Find proteins for Q2CEE3 (Oceanicola granulosus (strain ATCC BAA-861 / DSM 15982 / KCTC 12143 / HTCC2516))
Explore Q2CEE3 
Go to UniProtKB:  Q2CEE3
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2CEE3
Sequence Annotations
Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
A1DE4(
Subject of Investigation/LOI)

Query on A1DE4



Download:Ideal Coordinates CCD File
B [auth A]N~4~-butyl-N~2~-(2,6-dichlorophenyl)pyridine-2,4-diamine
C15 H17 Cl2 N3
NQWVIDYDUDSPSX-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.44 Å
  • R-Value Free:  0.301 (Depositor), 0.299 (DCC) 
  • R-Value Work:  0.216 (Depositor), 0.221 (DCC) 
  • R-Value Observed: 0.221 (Depositor) 
Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 84.672α = 90
b = 96.349β = 106.16
c = 62.43γ = 90
Software Package:
Software NamePurpose
XDSdata reduction
XSCALEdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2026-07-01
    Type: Initial release