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Crystal Structure of Inhibitor-Bound Bacterial Oligopeptidase B in the Closed State: Similarity and Difference between Protozoan and Bacterial Enzymes.
Petrenko DE, Karlinsky DM, Gordeeva VD, Arapidi GP, Britikova EV, Britikov VV, Nikolaeva AY, Boyko KM, Timofeev VI, Kuranova IP, Mikhailova AG, Bocharov EV, Rakitina TV. Petrenko DE, et al. Among authors: karlinsky dm. Int J Mol Sci. 2023 Jan 24;24(3):2286. doi: 10.3390/ijms24032286. Int J Mol Sci. 2023. PMID: 36768612 Free PMC article.
Molecular dynamics complemented by site-directed mutagenesis reveals significant difference between the interdomain salt bridge networks stabilizing oligopeptidases B from bacteria and protozoa in their active conformations.
Petrenko DE, Mikhailova AG, Timofeev VI, Agapova YК, Karlinsky DM, Komolov AS, Korzhenevskiy DA, Vlaskina AV, Rumsh LD, Rakitina TV. Petrenko DE, et al. Among authors: karlinsky dm. J Biomol Struct Dyn. 2020 Oct;38(16):4868-4882. doi: 10.1080/07391102.2019.1692694. Epub 2019 Nov 25. J Biomol Struct Dyn. 2020. PMID: 31724904
Activity modulation of the oligopeptidase B from Serratia proteamaculans by site-directed mutagenesis of amino acid residues surrounding catalytic triad histidine.
Mikhailova AG, Rakitina TV, Timofeev VI, Karlinsky DM, Korzhenevskiy DA, Agapova YК, Vlaskina AV, Ovchinnikova MV, Gorlenko VA, Rumsh LD. Mikhailova AG, et al. Among authors: karlinsky dm. Biochimie. 2017 Aug;139:125-136. doi: 10.1016/j.biochi.2017.05.013. Epub 2017 May 27. Biochimie. 2017. PMID: 28554571