8P8K

Acyl-ACP thioesterase from Lemna paucicostata in complex with a thiazolopyridine


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.278 
  • R-Value Work: 0.221 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

A Study in Scaffold Hopping: Discovery and Optimization of Thiazolopyridines as Potent Herbicides That Inhibit Acyl-ACP Thioesterase.

Abel, S.A.G.Alnafta, N.Asmus, E.Bollenbach-Wahl, B.Braun, R.Dittgen, J.Endler, A.Frackenpohl, J.Freigang, J.Gatzweiler, E.Heinemann, I.Helmke, H.Laber, B.Lange, G.Machettira, A.McArthur, G.Muller, T.Odaybat, M.Reingruber, A.M.Roth, S.Rosinger, C.H.Schmutzler, D.Schulte, W.Stoppel, R.Tiebes, J.Volpin, G.Barber, D.M.

(2023) J Agric Food Chem 71: 18212-18226

  • DOI: https://doi.org/10.1021/acs.jafc.3c02490
  • Primary Citation of Related Structures:  
    8P8K

  • PubMed Abstract: 

    In the search for new chemical entities that can control resistant weeds by addressing novel modes of action (MoAs), we were interested in further exploring a compound class that contained a 1,8-naphthyridine core. By leveraging scaffold hopping methodologies, we were able to discover the new thiazolopyridine compound class that act as potent herbicidal molecules. Further biochemical investigations allowed us to identify that the thiazolopyridines inhibit acyl-acyl carrier protein (ACP) thioesterase (FAT), with this being further confirmed via an X-ray cocrystal structure. Greenhouse trials revealed that the thiazolopyridines display excellent control of grass weed species in pre-emergence application coupled with dose response windows that enable partial selectivity in certain crops.


  • Organizational Affiliation

    Research and Development, Weed Control Research, Bayer AG, Crop Science Division, Industriepark Höchst, 65926, Frankfurt am Main, Germany.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Acyl-ACP thioesteraseA [auth AAA],
B [auth BBB]
320Lemna aequinoctialisMutation(s): 0 
EC: 3.1.2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
X7C (Subject of Investigation/LOI)
Query on X7C

Download Ideal Coordinates CCD File 
C [auth AAA],
D [auth BBB]
5-[2,6-bis(fluoranyl)phenyl]-6-chloranyl-[1,3]thiazolo[4,5-b]pyridine
C12 H5 Cl F2 N2 S
GXXFOBBMWYBHKQ-UHFFFAOYSA-N
MES
Query on MES

Download Ideal Coordinates CCD File 
E [auth BBB]2-(N-MORPHOLINO)-ETHANESULFONIC ACID
C6 H13 N O4 S
SXGZJKUKBWWHRA-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.278 
  • R-Value Work: 0.221 
  • Space Group: P 32 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 93.168α = 90
b = 93.168β = 90
c = 135.957γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
CrysalisProdata reduction
XSCALEdata scaling
MOLREPphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data

  • Released Date: 2023-09-20 
  • Deposition Author(s): Freigang, J.

Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2023-09-20
    Type: Initial release
  • Version 1.1: 2023-12-06
    Changes: Database references