Complex of HMG1 with pitavastatin

Experimental Data Snapshot

  • Resolution: 2.13 Å
  • R-Value Free: 0.262 
  • R-Value Work: 0.223 

wwPDB Validation   3D Report Full Report

This is version 1.2 of the entry. See complete history


A fungal tolerance trait and selective inhibitors proffer HMG-CoA reductase as a herbicide mode-of-action.

Haywood, J.Breese, K.J.Zhang, J.Waters, M.T.Bond, C.S.Stubbs, K.A.Mylne, J.S.

(2022) Nat Commun 13: 5563-5563

  • DOI: https://doi.org/10.1038/s41467-022-33185-0
  • Primary Citation of Related Structures:  
    7ULI, 8ECG

  • PubMed Abstract: 

    Decades of intense herbicide use has led to resistance in weeds. Without innovative weed management practices and new herbicidal modes of action, the unabated rise of herbicide resistance will undoubtedly place further stress upon food security. HMGR (3-hydroxy-3-methylglutaryl-coenzyme A reductase) is the rate limiting enzyme of the eukaryotic mevalonate pathway successfully targeted by statins to treat hypercholesterolemia in humans. As HMGR inhibitors have been shown to be herbicidal, HMGR could represent a mode of action target for the development of herbicides. Here, we present the crystal structure of a HMGR from Arabidopsis thaliana (AtHMG1) which exhibits a wider active site than previously determined structures from different species. This plant conserved feature enables the rational design of specific HMGR inhibitors and we develop a tolerance trait through sequence analysis of fungal gene clusters. These results suggest HMGR to be a viable herbicide target modifiable to provide a tolerance trait.

  • Organizational Affiliation

    Centre for Crop and Disease Management, School of Molecular and Life Sciences, Curtin University, Bentley, Perth, WA, 6102, Australia. joel.haywood@curtin.edu.au.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
3-hydroxy-3-methylglutaryl-coenzyme A reductase 1478Arabidopsis thalianaMutation(s): 0 
Gene Names: HMG1HMGR1At1g76490F14G6.9F15M4.1
Find proteins for P14891 (Arabidopsis thaliana)
Explore P14891 
Go to UniProtKB:  P14891
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP14891
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
PV9 (Subject of Investigation/LOI)
Query on PV9

Download Ideal Coordinates CCD File 
C [auth A]Pitavastatin
C25 H24 F N O4
Query on GOL

Download Ideal Coordinates CCD File 
C3 H8 O3
Experimental Data & Validation

Experimental Data

  • Resolution: 2.13 Å
  • R-Value Free: 0.262 
  • R-Value Work: 0.223 
  • Space Group: I 41 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 85.55α = 90
b = 85.55β = 90
c = 265.152γ = 90
Software Package:
Software NamePurpose
XDSdata reduction
STARANISOdata scaling

Structure Validation

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Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Australian Research Council (ARC)AustraliaDE180101445
Australian Research Council (ARC)AustraliaDP190101048
Australian Research Council (ARC)AustraliaLE190100123

Revision History  (Full details and data files)

  • Version 1.0: 2022-09-14
    Type: Initial release
  • Version 1.1: 2022-10-05
    Changes: Database references
  • Version 1.2: 2023-10-18
    Changes: Data collection, Refinement description