Reductive inactivation of the hemiaminal pharmacophore for resistance against tetrahydroisoquinoline antibiotics

• Published in: Nature communications Vol. 12; no. 1; p. 7085
• Main Authors: Wen, Wan-Hong, Zhang, Yue, Zhang, Ying-Ying, Yu, Qian, Jiang, Chu-Chu, Tang, Man-Cheng, Pu, Jin-Yue, Wu, Lian, Zhao, Yi-Lei, Shi, Ting, Zhou, Jiahai, Tang, Gong-Li
• Format: Journal Article
• Language: English
• Published: London Nature Publishing Group UK 06-12-2021; Nature Publishing Group; Nature Portfolio
• Subjects: 631/326/22/1434; 631/326/41/88; 631/92/60/1168; 82/80; 82/83; Anti-Bacterial Agents - biosynthesis; Anti-Bacterial Agents - chemistry; Antibiotic resistance; Antibiotics; Antitumor agents; Bacteria; Bacteria - genetics; Bacteria - metabolism; Bacterial Proteins - genetics; Bacterial Proteins - metabolism; Biocatalysis; Biosynthesis; Biosynthetic Pathways; Chains; Chromatography, High Pressure Liquid; Crystal structure; Damage; Deactivation; Dehydrogenases; Detoxification; Drug Resistance, Microbial - genetics; Humanities and Social Sciences; Humans; Inactivation; Isoquinolines - chemistry; Isoquinolines - metabolism; Mass Spectrometry - methods; Metabolism; Molecular dynamics; Molecular Dynamics Simulation; Molecular Structure; multidisciplinary; NADP - chemistry; NADP - metabolism; Naphthyridines - chemistry; Naphthyridines - metabolism; Oxidation-Reduction; Oxidoreductases - genetics; Oxidoreductases - metabolism; Pharmacology; Reductases; Saframycin; Science; Science (multidisciplinary); Self defense; Shielding; Simulation analysis; Tetrahydroisoquinoline; Tetrahydroisoquinolines - chemistry; Tetrahydroisoquinolines - metabolism
• ISSN: 2041-1723; 2041-1723
• DOI: 10.1038/s41467-021-27404-3

Antibiotic resistance is becoming one of the major crises, among which hydrolysis reaction is widely employed by bacteria to destroy the reactive pharmacophore. Correspondingly, antibiotic producer has canonically co-evolved this approach with the biosynthetic capability for self-resistance. Here we discover a self-defense strategy featuring with reductive inactivation of hemiaminal pharmacophore by short-chain dehydrogenases/reductases (SDRs) NapW and homW, which are integrated with the naphthyridinomycin biosynthetic pathway. We determine the crystal structure of NapW·NADPH complex and propose a catalytic mechanism by molecular dynamics simulation analysis. Additionally, a similar detoxification strategy is identified in the biosynthesis of saframycin A, another member of tetrahydroisoquinoline (THIQ) antibiotics. Remarkably, similar SDRs are widely spread in bacteria and able to inactive other THIQ members including the clinical anticancer drug, ET-743. These findings not only fill in the missing intracellular events of temporal-spatial shielding mode for cryptic self-resistance during THIQs biosynthesis, but also exhibit a sophisticated damage-control in secondary metabolism and general immunity toward this family of antibiotics.
Antibiotic-producing organisms need to co-evolve self-protection mechanisms to avoid any damage to themselves caused by the antibiotic pharmacophore (the reactive part of the compound). In this study, the authors report a self-defense strategy in naphthyridinomycin (NDM)-producing Streptomyces lusitanus, that comprises reductive inactivation of the hemiaminal pharmacophore by short-chain dehydrogenases/reductases (SDRs) NapW and HomW.