9OPS | pdb_00009ops

Structural Insights into Monoterpene Cyclisation of Limonene Synthase from Cannabis sativa


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.20 Å
  • R-Value Free: 
    0.288 (Depositor), 0.288 (DCC) 
  • R-Value Work: 
    0.230 (Depositor), 0.230 (DCC) 
  • R-Value Observed: 
    0.233 (Depositor) 

Starting Model: experimental
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Literature

Structural insights into monoterpene cyclisation of limonene synthase from Cannabis sativa.

Wiles, D.Roest, J.Vivian, J.P.Beddoe, T.

(2025) Biochem Biophys Res Commun 777: 152271-152271

  • DOI: https://doi.org/10.1016/j.bbrc.2025.152271
  • Primary Citation of Related Structures:  
    9OPS

  • PubMed Abstract: 

    Terpenes are the largest and most diverse class of natural products, essential for plant defence, ecological interactions, and environmental adaptation. Cannabis sativa is noted for its rich terpene profile, influencing aroma, flavour, and pharmacological properties. Limonene, a significant monoterpene, is commercially important in the fragrance and flavouring industries, making it a target for metabolic engineering. Terpene biosynthesis involves terpene synthase enzymes that convert isoprenoid diphosphates into diverse terpene scaffolds. Despite advances in terpene biochemistry, C. sativa TPSs lack structural characterisation. This study presents the first crystal structure of (-)-limonene synthase from C. sativa, offering insights into monoterpene biosynthesis. Solved at 3.2 Å resolution, the structure shows an "open" conformation with a solvent-accessible active site and disordered loops near the catalytic pocket, indicating a pre-catalytic state that aids substrate access. Biochemical characterisation confirmed limonene synthase as a highly specific monoterpene synthase, predominantly producing (-)-limonene from geranyl diphosphate with minor amounts of eight other monoterpenes. Kinetic analysis provided a K m of 7.809 ± 0.678 μM and a k cat of 0.0204 s -1 , indicating moderate catalytic efficiency compared to other plant monoterpene synthases. These findings improve understanding of TPS function and set the stage for enzyme engineering to optimise terpene biosynthesis for industrial and biotechnological applications.


  • Organizational Affiliation
    • ARC Research Hub for Medicinal Agriculture, La Trobe University, Bundoora, 3083, Australia; Department of Ecological, Plant and Animal Science, School of Agriculture, Biomedicine and Environment, La Trobe University, Bundoora, 3083, Australia.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
(-)-limonene synthase TPS1, chloroplastic567Cannabis sativaMutation(s): 0 
Gene Names: TPS1TPS14CT
EC: 4.2.3.16 (PDB Primary Data), 4.2.3.121 (PDB Primary Data), 4.2.3.122 (PDB Primary Data), 4.2.3.20 (PDB Primary Data), 4.2.3.15 (PDB Primary Data), 4.2.3.113 (PDB Primary Data)
UniProt
Find proteins for A7IZZ1 (Cannabis sativa)
Explore A7IZZ1 
Go to UniProtKB:  A7IZZ1
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA7IZZ1
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.20 Å
  • R-Value Free:  0.288 (Depositor), 0.288 (DCC) 
  • R-Value Work:  0.230 (Depositor), 0.230 (DCC) 
  • R-Value Observed: 0.233 (Depositor) 
Space Group: P 32 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 97.336α = 90
b = 97.336β = 90
c = 117.723γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata scaling
XDSdata reduction
PHASERphasing
PDB_EXTRACTdata extraction

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2025-07-16
    Type: Initial release