5O16

Crystal structure of bifunctional dehydratase-cyclase domain in ambruticin biosynthesis


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.745 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.186 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Insights into the Dual Activity of a Bifunctional Dehydratase-Cyclase Domain.

Sung, K.H.Berkhan, G.Hollmann, T.Wagner, L.Blankenfeldt, W.Hahn, F.

(2018) Angew. Chem. Int. Ed. Engl. 57: 343-347

  • DOI: 10.1002/anie.201707774
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Oxygen-containing heterocycles are a common structural motif in polyketide natural products and contribute significantly to their biological activity. Here, we report structural and mechanistic investigations on AmbDH3, a polyketide synthase domain w ...

    Oxygen-containing heterocycles are a common structural motif in polyketide natural products and contribute significantly to their biological activity. Here, we report structural and mechanistic investigations on AmbDH3, a polyketide synthase domain with dual activity as dehydratase (DH) and pyran-forming cyclase in ambruticin biosynthesis. AmbDH3 is similar to monofunctional DH domains, using H51 and D215 for dehydration. V173 was confirmed as a diagnostic residue for cyclization activity by a mutational study and enzymatic in vitro experiments. Similar motifs were observed in the seemingly monofunctional AmbDH2, which also shows an unexpected cyclase activity. Our results pave the way for mining of hidden cyclases in biosynthetic pathways. They also open interesting prospects for the generation of novel biocatalysts for chemoenzymatic synthesis and pyran-polyketides by combinatorial biosynthesis.


    Organizational Affiliation

    Helmholtz-Zentrum für Infektionsforschung GmbH, Inhoffenstrasse 7, 38124, Braunschweig, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
AmbC
A, B
311Sorangium cellulosumMutation(s): 0 
Gene Names: ambC
Find proteins for A1YBQ4 (Sorangium cellulosum)
Go to UniProtKB:  A1YBQ4
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.745 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.186 
  • Space Group: P 41 21 2
Unit Cell:
Length (Å)Angle (°)
a = 114.548α = 90.00
b = 114.548β = 90.00
c = 132.048γ = 90.00
Software Package:
Software NamePurpose
BALBESphasing
PHENIXrefinement
REFMACrefinement
AutoPROCdata reduction
AutoPROCdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
German Research FoundationGermanyHA 5841/2-1
European Union293430

Revision History 

  • Version 1.0: 2017-11-08
    Type: Initial release
  • Version 1.1: 2018-01-03
    Type: Database references