7E36 image
Deposition Date 2021-02-08
Release Date 2021-03-10
Last Version Date 2023-11-29
Entry Detail
PDB ID:
7E36
Keywords:
Title:
A [6+4]-cycloaddition adduct is the biosynthetic intermediate in streptoseomycin biosynthesis
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
2.00 Å
R-Value Free:
0.20
R-Value Work:
0.16
R-Value Observed:
0.16
Space Group:
P 1 21 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Alkanesulfonate monooxygenase SsuD/methylene tetrahydromethanopterin reductase-like flavin-dependent oxidoreductase (Luciferase family)
Gene (Uniprot):DFR70_1157
Chain IDs:A
Chain Length:324
Number of Molecules:1
Biological Source:Nocardia tenerifensis
Polymer Type:polypeptide(L)
Molecule:FMN-dependent oxidoreductase (Nitrilotriacetate monooxygenase family)
Gene (Uniprot):DFR70_1156
Chain IDs:B
Chain Length:421
Number of Molecules:1
Biological Source:Nocardia tenerifensis
Primary Citation
A [6+4]-cycloaddition adduct is the biosynthetic intermediate in streptoseomycin biosynthesis.
Nat Commun 12 2092 2092 (2021)
PMID: 33828077 DOI: 10.1038/s41467-021-22395-7

Abstact

Streptoseomycin (STM, 1) is a bacterial macrolactone that has a unique 5/14/10/6/6-pentacyclic ring with an ether bridge. We have previously identified the biosynthetic gene cluster for 1 and characterized StmD as [6 + 4]- and [4 + 2]-bispericyclase that catalyze a reaction leading to both 6/10/6- and 10/6/6-tricyclic adducts (6 and 7). The remaining steps, especially how to install and stabilize the required 10/6/6-tricyclic core for downstream modifications, remain unknown. In this work, we have identified three oxidoreductases that fix the required 10/6/6-tryciclic core. A pair of flavin-dependent oxidoreductases, StmO1 and StmO2, catalyze the direct hydroxylation at [6 + 4]-adduct (6). Subsequently, a spontaneous [3,3]-Cope rearrangement and an enol-ketone tautomerization result in the formation of 10/6/6-tricyclic intermediate 12b, which can be further converted to a stable 10/6/6-tricyclic alcohol 11 through a ketoreduction by StmK. Crystal structure of the heterodimeric complex NtfO1-NtfO2, homologues of StmO1-StmO2 with equivalent function, reveals protein-protein interactions. Our results demonstrate that the [6 + 4]-adduct instead of [4 + 2]-adduct is the bona fide biosynthetic intermediate.

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