7PA5 image
Deposition Date 2021-07-29
Release Date 2022-11-16
Last Version Date 2024-11-06
Entry Detail
PDB ID:
7PA5
Keywords:
Title:
Complex between the beta-lactamase CMY-2 with an inhibitory nanobody
Biological Source:
Source Organism:
Escherichia coli (Taxon ID: 562)
Camelidae (Taxon ID: 9835)
Method Details:
Experimental Method:
Resolution:
3.18 Å
R-Value Free:
0.25
R-Value Work:
0.20
R-Value Observed:
0.20
Space Group:
P 62 2 2
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Beta-lactamase
Gene (Uniprot):bla CMY-2
Chain IDs:A
Chain Length:361
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:nanobody
Chain IDs:B
Chain Length:129
Number of Molecules:1
Biological Source:Camelidae
Primary Citation
Development of Nanobodies as Theranostic Agents against CMY-2-Like Class C beta-Lactamases.
Antimicrob.Agents Chemother. 67 e0149922 e0149922 (2023)
PMID: 36892280 DOI: 10.1128/aac.01499-22

Abstact

Three soluble single-domain fragments derived from the unique variable region of camelid heavy-chain antibodies (VHHs) against the CMY-2 β-lactamase behaved as inhibitors. The structure of the complex VHH cAbCMY-2(254)/CMY-2 showed that the epitope is close to the active site and that the CDR3 of the VHH protrudes into the catalytic site. The β-lactamase inhibition pattern followed a mixed profile with a predominant noncompetitive component. The three isolated VHHs recognized overlapping epitopes since they behaved as competitive binders. Our study identified a binding site that can be targeted by a new class of β-lactamase inhibitors designed on the sequence of the paratope. Furthermore, the use of mono- or bivalent VHH and rabbit polyclonal anti-CMY-2 antibodies enables the development of the first generation of enzyme-linked immunosorbent assay (ELISA) for the detection of CMY-2 produced by CMY-2-expressing bacteria, irrespective of resistotype.

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Primary Citation of related structures