6RS4

Structure of tabersonine synthase - an alpha-beta hydrolase from Catharanthus roseus


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.30 Å
  • R-Value Free: 0.162 
  • R-Value Work: 0.133 
  • R-Value Observed: 0.134 

Starting Model: experimental
View more details

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structural basis of cycloaddition in biosynthesis of iboga and aspidosperma alkaloids.

Caputi, L.Franke, J.Bussey, K.Farrow, S.C.Vieira, I.J.C.Stevenson, C.E.M.Lawson, D.M.O'Connor, S.E.

(2020) Nat Chem Biol 16: 383-386

  • DOI: https://doi.org/10.1038/s41589-019-0460-x
  • Primary Citation of Related Structures:  
    6RJ8, 6RS4, 6RT8

  • PubMed Abstract: 

    Cycloaddition reactions generate chemical complexity in a single step. Here we report the crystal structures of three homologous plant-derived cyclases involved in the biosynthesis of iboga and aspidosperma alkaloids. These enzymes act on the same substrate, named angryline, to generate three distinct scaffolds. Mutational analysis reveals how these highly similar enzymes control regio- and stereo-selectivity.


  • Organizational Affiliation

    Max Planck Institute of Chemical Ecology, Department of Natural Product Biosynthesis, Jena, Germany.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Tabersonine synthase
A, B
321Catharanthus roseusMutation(s): 0 
Gene Names: TSHL2
EC: 4
UniProt
Find proteins for A0A2P1GIW3 (Catharanthus roseus)
Explore A0A2P1GIW3 
Go to UniProtKB:  A0A2P1GIW3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A2P1GIW3
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
EDO
Query on EDO

Download Ideal Coordinates CCD File 
C [auth A]
D [auth A]
E [auth A]
F [auth A]
G [auth A]
C [auth A],
D [auth A],
E [auth A],
F [auth A],
G [auth A],
H [auth A],
I [auth B],
J [auth B],
K [auth B],
L [auth B],
M [auth B]
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.30 Å
  • R-Value Free: 0.162 
  • R-Value Work: 0.133 
  • R-Value Observed: 0.134 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 56.485α = 90
b = 108.962β = 108.54
c = 63.235γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PDB_EXTRACTdata extraction
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Research CouncilBelgium788301
Biotechnology and Biological Sciences Research CouncilUnited KingdomBB/P012523/1

Revision History  (Full details and data files)

  • Version 1.0: 2020-03-04
    Type: Initial release
  • Version 1.1: 2020-04-01
    Changes: Database references
  • Version 1.2: 2024-01-24
    Changes: Data collection, Database references, Refinement description