Structural analysis of P450 AmphL from Streptomyces nodosus provides insights into substrate selectivity of polyene macrolide antibiotic biosynthetic P450s
| Autor: | Jose A. Amaya, David C. Lamb, Steven L. Kelly, Patrick Caffrey, Vidhi C. Murarka, Thomas L. Poulos |
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| Rok vydání: | 2022 |
| Předmět: |
crystal structure
Biochemistry & Molecular Biology cytochrome P450 substrate specificity Cell Biology Molecular Dynamics Simulation Biological Sciences Medical and Health Sciences Biochemistry Streptomyces antibiotics molecular dynamics Substrate Specificity Anti-Bacterial Agents Infectious Diseases Cytochrome P-450 Enzyme System Bacterial Proteins Amphotericin B Chemical Sciences Infection Molecular Biology Protein Binding |
| Zdroj: | The Journal of biological chemistry, vol 298, iss 4 |
| ISSN: | 0021-9258 |
| DOI: | 10.1016/j.jbc.2022.101746 |
| Popis: | AmphL is a cytochrome P450 enzyme that catalyzes the C8 oxidation of 8-deoxyamphotericin B to the polyene macrolide antibiotic, amphotericin B. To understand this substrate selectivity, we solved the crystal structure of AmphL to a resolution of 2.0Å in complex with amphotericin B and performed molecular dynamics (MD) simulations. A detailed comparison with the closely related P450, PimD, which catalyzes the epoxidation of 4,5-desepoxypimaricin to the macrolide antibiotic, pimaricin, reveals key catalytic structural features responsible for stereo- and regio-selective oxidation. Both P450s have a similar access channel that runs parallel to the active site I helix over the surface of the heme. Molecular dynamics simulations of substrate binding reveal PimD can "pull" substrates further into the P450 access channel owing to additional electrostatic interactions between the protein and the carboxyl group attached to the hemiketal ring of 4,5-desepoxypimaricin. This substrate interaction is absent in AmphL although the additional substrate -OH groups in 8-deoxyamphotericin B help to correctly position the substrate for C8 oxidation. Simulations of the oxy-complex indicates that these -OH groups may also participate in a proton relay network required for O2 activation as has been suggested for two other macrolide P450s, PimD and P450eryF. These findings provide experimentally testable models that can potentially contribute to a new generation of novel macrolide antibiotics with enhanced antifungal and/or antiprotozoal efficacy. |
| Databáze: | OpenAIRE |
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