7zo3 | pdb_00007zo3
L1 metallo-beta-lactamase in complex with hydrolysed tebipenem
Structural highlights
FunctionBLA1_STEMA Has a high activity against imipenem. Publication Abstract from PubMedL1 is a dizinc subclass B3 metallo-beta-lactamase (MBL) that hydrolyzes most beta-lactam antibiotics and is a key resistance determinant in the Gram-negative pathogen Stenotrophomonas maltophilia, an important cause of nosocomial infections in immunocompromised patients. L1 is not usefully inhibited by MBL inhibitors in clinical trials, underlying the need for further studies on L1 structure and mechanism. We describe kinetic studies and crystal structures of L1 in complex with hydrolyzed beta-lactams from the penam (mecillinam), cephem (cefoxitin/cefmetazole), and carbapenem (tebipenem, doripenem, and panipenem) classes. Despite differences in their structures, all the beta-lactam-derived products hydrogen bond to Tyr33, Ser221, and Ser225 and are stabilized by interactions with a conserved hydrophobic pocket. The carbapenem products were modeled as Delta(1)-imines, with (2S)-stereochemistry. Their binding mode is determined by the presence of a 1beta-methyl substituent: the Zn-bridging hydroxide either interacts with the C-6 hydroxyethyl group (1beta-hydrogen-containing carbapenems) or is displaced by the C-6 carboxylate (1beta-methyl-containing carbapenems). Unexpectedly, the mecillinam product is a rearranged N-formyl amide rather than penicilloic acid, with the N-formyl oxygen interacting with the Zn-bridging hydroxide. NMR studies imply mecillinam rearrangement can occur nonenzymatically in solution. Cephem-derived imine products are bound with (3R)-stereochemistry and retain their 3' leaving groups, likely representing stable endpoints, rather than intermediates, in MBL-catalyzed hydrolysis. Our structures show preferential complex formation by carbapenem- and cephem-derived species protonated on the equivalent (beta) faces and so identify interactions that stabilize diverse hydrolyzed antibiotics. These results may be exploited in developing antibiotics, and beta-lactamase inhibitors, that form long-lasting complexes with dizinc MBLs. Interactions of hydrolyzed beta-lactams with the L1 metallo-beta-lactamase: Crystallography supports stereoselective binding of cephem/carbapenem products.,Hinchliffe P, Calvopina K, Rabe P, Mojica MF, Schofield CJ, Dmitrienko GI, Bonomo RA, Vila AJ, Spencer J J Biol Chem. 2023 May;299(5):104606. doi: 10.1016/j.jbc.2023.104606. Epub 2023 , Mar 15. PMID:36924941[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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