8DFZ

NMR shows why a small chemical change almost abolishes the antimicrobial activity of GccF

Summary for 8DFZ

• Entry DOI: 10.2210/pdb8dfz/pdb
• Related: 2KUY
• NMR Information: BMRB: 31028
• Descriptor: Bacteriocin glycocin F, 2-acetamido-2-deoxy-beta-D-glucopyranose (2 entities in total)
• Functional Keywords: gccf, antimicrobial, bacteriostatic, antimicrobial protein
• Biological source: Lactiplantibacillus plantarum
• Total number of polymer chains: 1
• Total formula weight: 5262.82

Authors

Harjes, E.,Edwards, P.J.B.,Norris, G. (deposition date: 2022-06-23, release date: 2023-07-05, Last modification date: 2023-09-13)

Primary citation

Harjes, E.,Edwards, P.J.B.,Bisset, S.W.,Patchett, M.L.,Jameson, G.B.,Yang, S.H.,Navo, C.D.,Harris, P.W.R.,Brimble, M.A.,Norris, G.E.
NMR Shows Why a Small Chemical Change Almost Abolishes the Antimicrobial Activity of Glycocin F.
Biochemistry, 62:2669-2676, 2023

PubMed Abstract: Glycocin F (GccF), a ribosomally synthesized, post-translationally modified peptide secreted by KW30, rapidly inhibits the growth of susceptible bacteria at nanomolar concentrations. Previous studies have highlighted structural features important for its activity and have shown the absolute requirement for the Ser18 -linked GlcNAc on the eight-residue loop linking the two short helices of the (C-X6-C) structure. Here, we show that an ostensibly very small chemical modification to Ser18, the substitution of the C proton with a methyl group, reduces the antimicrobial activity of GccF 1000-fold (IC 1.5 μM . 1.5 nM). A comparison of the GccF NMR structure (PDB 8DFZ) with that of the native protein (PDB 2KUY) showed a marked difference in the orientation and mobility of the loop, as well as a markedly different positioning of the GlcNAc, suggesting that loop conformation, dynamics, and glycan presentation play an important role in the interaction of GccF with as yet unknown but essential physiological target molecules.

PubMed: 37531216
DOI: 10.1021/acs.biochem.3c00197

Experimental method

SOLUTION NMR