29WA | pdb_000029wa

Structure of Cannabidiolic acid synthase(CBDAS) in complex with FAD


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 
    0.184 (Depositor), 0.195 (DCC) 
  • R-Value Work: 
    0.153 (Depositor), 0.167 (DCC) 
  • R-Value Observed: 
    0.154 (Depositor) 

Starting Model: in silico
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Ligand Structure Quality Assessment 


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Literature

X-ray crystal structures of the cannabinoid synthases CBCAS, CBDAS and THCAS.

Domenech, J.King, A.Byrne, E.Cartwright, J.Grogan, G.

(2026) Curr Res Struct Biol 12: 100197-100197

  • DOI: https://doi.org/10.1016/j.crstbi.2026.100197
  • Primary Citation Related Structures: 
    29VY, 29VZ, 29WA

  • PubMed Abstract: 

    The enzymes Cannabichromenic Acid Synthase (CBCAS), Cannabidiolic Acid Synthase (CBDAS) and Tetrahydrocannabinolic Acid Synthase (THCAS) are together the major cannabinoid synthase enzymes responsible for the biosynthesis of their respective metabolites from a common precursor Cannabigerolic Acid (CBGA). As the catalysts responsible for generating biological molecules of significant pharmaceutical value, there has been considerable interest in the enzymes with respect to heterologous production, mechanism, and incorporation into synthetic biology pathways for the facile industrial production of these molecules. The enzymes share high degrees of homology, and therefore their distinct specificities are governed by very subtle differences in sequence and therefore structure, although, until now, only a structure for THCAS has been reported. In this report, we present structures of CBCAS, CBDAS and a structure of THCAS at a higher resolution than the known structure, each in complex with their flavin coenzyme FAD. The structures reveal active site differences that may be responsible for the complementary activities observed, in terms of both first-shell amino acid substitutions, but also in more remote residues that influence active site topology through referred effects, or that have effects on substrate access. The structures provide a useful and informative platform for the rational engineering of improved or altered chemoselectivity in these enzymes.


  • Organizational Affiliation
    • Department of Chemistry, University of York, Heslington, York, YO10 5DD, UK.

Macromolecule Content 

  • Total Structure Weight: 63.91 kDa 
  • Atom Count: 4,446 
  • Modeled Residue Count: 497 
  • Deposited Residue Count: 544 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Cannabidiolic acid synthase544Cannabis sativaMutation(s): 0 
Gene Names: CBDAS
EC: 1.21.3.8
UniProt
Find proteins for A6P6V9 (Cannabis sativa)
Explore A6P6V9 
Go to UniProtKB:  A6P6V9
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA6P6V9
Glycosylation
Glycosylation Sites: 2
Sequence Annotations
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Reference Sequence

Small Molecules

Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
FAD
(Subject of Investigation/LOI)

Query on FAD



Download:Ideal Coordinates CCD File
B [auth A]FLAVIN-ADENINE DINUCLEOTIDE
C27 H33 N9 O15 P2
VWWQXMAJTJZDQX-UYBVJOGSSA-N
NAG

Query on NAG



Download:Ideal Coordinates CCD File
C [auth A],
D [auth A]
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
TRS

Query on TRS



Download:Ideal Coordinates CCD File
E [auth A],
F [auth A]
2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
C4 H12 N O3
LENZDBCJOHFCAS-UHFFFAOYSA-O
EDO

Query on EDO



Download:Ideal Coordinates CCD File
G [auth A],
H [auth A]
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free:  0.184 (Depositor), 0.195 (DCC) 
  • R-Value Work:  0.153 (Depositor), 0.167 (DCC) 
  • R-Value Observed: 0.154 (Depositor) 
Space Group: P 2 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 63.025α = 90
b = 65.996β = 90
c = 135.559γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
XDSdata reduction
SCALAdata scaling
MOLREPphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2026-07-29
    Type: Initial release
  • Version 1.1: 2026-08-05
    Changes: Database references