8V4B image
Entry Detail
PDB ID:
8V4B
Keywords:
Title:
NMR structure of a synthetic analogue of Ramoplanin A2
Biological Source:
Source Organism:
PDB Version:
Deposition Date:
2023-11-28
Release Date:
2025-04-16
Method Details:
Experimental Method:
Conformers Calculated:
200
Conformers Submitted:
20
Selection Criteria:
target function
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Ramoplanin A2 synthetic analogue
Chain IDs:A
Chain Length:18
Number of Molecules:1
Biological Source:Actinoplanes
Ligand Molecules
Primary Citation
Synthetic ramoplanin analogues are accessible by effective incorporation of arylglycines in solid-phase peptide synthesis.
Chem Sci 15 195 203 (2023)
PMID: 38131086 DOI: 10.1039/d3sc01944f

Abstact

The threat of antimicrobial resistance to antibiotics requires a continual effort to develop alternative treatments. Arylglycines (or phenylglycines) are one of the signature amino acids found in many natural peptide antibiotics, but their propensity for epimerization in solid-phase peptide synthesis (SPPS) has prevented their use in long peptide sequences. We have now identified an optimized protocol that allows the synthesis of challenging non-ribosomal peptides including precursors of the glycopeptide antibiotics and an analogue of feglymycin (1 analogue, 20%). We have exploited this protocol to synthesize analogues of the peptide antibiotic ramoplanin using native chemical ligation/desulfurization (1 analogue, 6.5%) and head-to-tail macrocyclization in excellent yield (6 analogues, 3-9%), with these compounds extensively characterized by NMR (U-shaped structure) and antimicrobial activity assays (two clinical isolates). This method significantly reduces synthesis time (6-9 days) when compared with total syntheses (2-3 months) and enables drug discovery programs to include arylglycines in structure-activity relationship studies and drug development.

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