9SNJ | pdb_00009snj

Mus musculus acetylcholinesterase in complex with N-(2-methoxybenzyl)-2-(1-methyl-1H-indol-3-yl)ethan-1-amine


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 
    0.203 (Depositor), 0.207 (DCC) 
  • R-Value Work: 
    0.179 (Depositor), 0.181 (DCC) 
  • R-Value Observed: 
    0.180 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history

Literature

Potent and selective indole-based inhibitors targeting disease-transmitting mosquitoes.

Rajeshwari, R.Duvauchelle, V.Lindgren, C.Stangner, K.Knutsson, S.Forsgren, N.Ekstrom, F.Kamau, L.Linusson, A.

(2026) RSC Med Chem 17: 1166-1186

  • DOI: https://doi.org/10.1039/d5md00797f
  • Primary Citation Related Structures: 
    9SND, 9SNJ

  • PubMed Abstract: 

    Vector control with insecticides is an important preventive measure against mosquito-borne infectious diseases, such as malaria and dengue. The intensive usage of few insecticides has resulted in emerging resistance in mosquitoes, and unwanted off-target toxic effects. Therefore, there is great interest in alternative active ingredients. Here, we explore indole-based compounds as selective inhibitors against acetylcholinesterase 1 (AChE1) from the disease-transmitting mosquitoes Anopheles gambiae ( An. gambiae , Ag AChE1) and Aedes aegypti ( Ae. aegypti , Ae AChE1) as potential candidates for future insecticides used in vector control. Three sets of compounds were designed to explore their structure-activity relationship, and investigate their potentials regarding potency and selectivity. 26 indole-based compounds were synthesized and biochemically evaluated for inhibition against Ag AChE1, Ae AChE1, and human AChE ( h AChE). The compounds were shown to be potent inhibitors against AChE1, and selective for AChE1 over h AChE. N -Methylation of the indole moiety clearly increased the inhibition potency, and a bulkier benzyl moiety improved the selectivity. X-ray crystallography shows that the inhibitors bind at the bottom of the active site gorge of mouse AChE ( m AChE), while molecular dynamics simulations revealed different binding poses in m AChE and Ag AChE1. Four potent and selective inhibitors were subjected to in vivo mosquito testing. Topical application showed strong insecticidal effects on An. gambiae and Ae. aegypti , highlighting this compound class as an interesting alternative for future insecticide research.


  • Organizational Affiliation
    • Department of Chemistry, Umeå University Sweden anna.linusson@umu.se.

Macromolecule Content 

  • Total Structure Weight: 121.59 kDa 
  • Atom Count: 8,866 
  • Modeled Residue Count: 1,068 
  • Deposited Residue Count: 1,086 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Acetylcholinesterase
A, B
543Mus musculusMutation(s): 0 
Gene Names: Ache
EC: 3.1.1.7
UniProt & NIH Common Fund Data Resources
Find proteins for P21836 (Mus musculus)
Explore P21836 
Go to UniProtKB:  P21836
IMPC:  MGI:87876
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP21836
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free:  0.203 (Depositor), 0.207 (DCC) 
  • R-Value Work:  0.179 (Depositor), 0.181 (DCC) 
  • R-Value Observed: 0.180 (Depositor) 
Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 79.493α = 90
b = 112.581β = 90
c = 227.811γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
Aimlessdata scaling
PHENIXphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Swedish Research CouncilSweden2017-00664

Revision History  (Full details and data files)

  • Version 1.0: 2026-01-28
    Type: Initial release
  • Version 1.1: 2026-03-11
    Changes: Database references