8FEK image
Deposition Date 2022-12-06
Release Date 2023-11-08
Last Version Date 2024-03-27
Entry Detail
PDB ID:
8FEK
Keywords:
Title:
Crystal structure of PBP cyclase Ulm16
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
2.06 Å
R-Value Free:
0.22
R-Value Work:
0.17
R-Value Observed:
0.18
Space Group:
P 1 21 1
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:PBP cyclase Ulm16
Gene (Uniprot):ulm16
Chain IDs:A
Chain Length:434
Number of Molecules:1
Biological Source:Streptomyces sp. KCB13F003
Primary Citation
Biocatalytic cyclization of small macrolactams by a penicillin-binding protein-type thioesterase.
Nat.Chem.Biol. 20 120 128 (2024)
PMID: 38062262 DOI: 10.1038/s41589-023-01495-z

Abstact

Macrocyclic peptides represent promising scaffolds for chemical tools and potential therapeutics. Synthetic methods for peptide macrocyclization are often hampered by C-terminal epimerization and oligomerization, leading to difficult scalability. While chemical strategies to circumvent this issue exist, they often require specific amino acids to be present in the peptide sequence. Herein, we report the characterization of Ulm16, a peptide cyclase belonging to the penicillin-binding protein-type class of thioesterases that catalyze head-to-tail macrolactamization of nonribosmal peptides. Ulm16 efficiently cyclizes various nonnative peptides ranging from 4 to 6 amino acids with catalytic efficiencies of up to 3 × 106 M-1 s-1. Unlike many previously described homologs, Ulm16 tolerates a variety of C- and N-terminal amino acids. The crystal structure of Ulm16, along with modeling of its substrates and site-directed mutagenesis, allows for rationalization of this wide substrate scope. Overall, Ulm16 represents a promising tool for the biocatalytic production of macrocyclic peptides.

Legend

Protein

Chemical

Disease

Primary Citation of related structures
Feedback Form
Name
Email
Institute
Feedback