8EJY image
Deposition Date 2022-09-19
Release Date 2022-11-23
Last Version Date 2023-10-25
Entry Detail
PDB ID:
8EJY
Keywords:
Title:
[4+2] Aza-Cyclase F293A variant
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.47 Å
R-Value Free:
0.25
R-Value Work:
0.20
R-Value Observed:
0.20
Space Group:
P 21 21 21
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:PbtD
Gene (Uniprot):pbtD
Mutagens:Y293A
Chain IDs:A
Chain Length:334
Number of Molecules:1
Biological Source:Planobispora rosea
Primary Citation
Enzymatic Pyridine Aromatization during Thiopeptide Biosynthesis.
J.Am.Chem.Soc. 144 21116 21124 (2022)
PMID: 36351243 DOI: 10.1021/jacs.2c07377

Abstact

Thiazole-containing pyritides (thiopeptides) are ribosomally synthesized and post-translationally modified peptides (RiPPs) that have attracted interest owing to their potent biological activities and structural complexity. The class-defining feature of a thiopeptide is a six-membered, nitrogenous heterocycle formed by an enzymatic [4 + 2]-cycloaddition. In rare cases, piperidine or dehydropiperidine (DHP) is present; however, the aromatized pyridine is considerably more common. Despite significant effort, the mechanism by which the central pyridine is formed remains poorly understood. Building on our recent observation of the Bycroft-Gowland intermediate (i.e., the direct product of the [4 + 2]-cycloaddition), we interrogated thiopeptide pyridine synthases using a combination of targeted mutagenesis, kinetic assays, substrate analogs, enzyme-substrate cross-linking, and chemical rescue experiments. Collectively, our data delineate roles for several conserved residues in thiopeptide pyridine synthases. A critical tyrosine facilitates the final aromatization step of pyridine formation. This work provides a foundation for further exploration of the [4 + 2]-cycloaddition reaction and future customization of pyridine-containing macrocyclic peptides.

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Primary Citation of related structures