Основные публикации

1. Belousov A, Maslov I, Orekhov P, Khorn P, Kuzmichev P, Baleeva N, Motov V, Bogorodskiy A, Krasnova S, Mineev K, Zinchenko D, Zernii E, Ivanovich V, Permyakov S, Hofkens J, Hendrix J, Cherezov V, Gensch T, Mishin A, Baranov M, Mishin A, Borshchevskiy V. Monitoring GPCR conformation with GFP-inspired dyes. iScience. 2024 Jul 4;27(8):110466. doi: 10.1016/j.isci.2024.110466. PMID: 39156645; PMCID: PMC11326922. Q1
2. Deryusheva EI, Shevelyova MP, Rastrygina VA, Nemashkalova EL, Vologzhannikova AA, Machulin AV, Nazipova AA, Permyakova ME, Permyakov SE, Litus EA. In Search for Low-Molecular-Weight Ligands of Human Serum Albumin That Affect Its Affinity for Monomeric Amyloid ОІ Peptide. Int J Mol Sci. 2024 May 2;25(9):4975. doi: 10.3390/ijms25094975. PMID: 38732194; PMCID: PMC11084196. Q1
3. Kazakov AS, Rastrygina VA, Vologzhannikova AA, Zemskova MY, Bobrova LA, Deryusheva EI, Permyakova ME, Sokolov AS, Litus EA, Shevelyova MP, Uversky VN, Permyakov EA, Permyakov SE. Recognition of granulocyte-macrophage colony-stimulating factor by specific S100 proteins. Cell Calcium. 2024 May;119:102869. doi: 10.1016/j.ceca.2024.102869. Epub 2024 Mar 5. PMID: 38484433. Q1
4. Denessiouk K, Denesyuk AI, Permyakov SE, Permyakov EA, Johnson MS, Uversky VN. The active site of the SGNH hydrolase-like fold proteins: Nucleophile-oxyanion (Nuc-Oxy) and Acid-Base zones. Curr Res Struct Biol. 2023 Dec 29;7:100123. doi: 10.1016/j.crstbi.2023.100123. PMID: 38235349; PMCID: PMC10792757. Q2
5. Kazakov AS, Deryusheva EI, Rastrygina VA, Sokolov AS, Permyakova ME, Litus EA, Uversky VN, Permyakov EA, Permyakov SE. Interaction of S100A6 Protein with the Four-Helical Cytokines. Biomolecules. 2023 Sep 4;13(9):1345. doi: 10.3390/biom13091345. PMID: 37759746; PMCID: PMC10526228. Q1
6. Kazakov AS, Zemskova MY, Rystsov GK, Vologzhannikova AA, Deryusheva EI, Rastrygina VA, Sokolov AS, Permyakova ME, Litus EA, Uversky VN, Permyakov EA, Permyakov SE. Specific S100 Proteins Bind Tumor Necrosis Factor and Inhibit Its Activity. Int J Mol Sci. 2022 Dec 15;23(24):15956. doi: 10.3390/ijms232415956. PMID: 36555597; PMCID: PMC9783754. Q1
7. Vladimirov VI, Shchannikova MP, Baldin AV, Kazakov AS, Shevelyova MP, Nazipova AA, Baksheeva VE, Nemashkalova EL, Frolova AS, Tikhomirova NK, Philippov PP, Zamyatnin AA Jr, Permyakov SE, Zinchenko DV, Zernii EY. Redox Regulation of Signaling Complex between Caveolin-1 and Neuronal Calcium Sensor Recoverin. Biomolecules. 2022 Nov 16;12(11):1698. doi: 10.3390/biom12111698. PMID: 36421712; PMCID: PMC9687869. Q1
8. Kazakov AS, Deryusheva EI, Permyakova ME, Sokolov AS, Rastrygina VA, Uversky VN, Permyakov EA, Permyakov SE. Calcium-Bound S100P Protein Is a Promiscuous Binding Partner of the Four-Helical Cytokines. Int J Mol Sci. 2022 Oct 9;23(19):12000. doi: 10.3390/ijms231912000. PMID: 36233301; PMCID: PMC9569990. Q1
9. Denesyuk AI, Permyakov SE, Permyakov EA, Johnson MS, Denessiouk K, Uversky VN. Canonical structural-binding modes in the calmodulin-target protein complexes. J Biomol Struct Dyn. 2023 Sep-Oct;41(16):7582-7594. doi: 10.1080/07391102.2022.2123391. Epub 2022 Sep 15. PMID: 36106955. Q2
10. Baksheeva VE, Tsvetkov PO, Zalevsky AO, Vladimirov VI, Gorokhovets NV, Zinchenko DV, Permyakov SE, Devred F, Zernii EY. Zinc Modulation of Neuronal Calcium Sensor Proteins: Three Modes of Interaction with Different Structural Outcomes. Biomolecules. 2022 Jul 8;12(7):956. doi: 10.3390/biom12070956. PMID: 35883512; PMCID: PMC9312857. Q1
11. Litus EA, Kazakov AS, Deryusheva EI, Nemashkalova EL, Shevelyova MP, Machulin AV, Nazipova AA, Permyakova ME, Uversky VN, Permyakov SE. Ibuprofen Favors Binding of Amyloid-ОІ Peptide to Its Depot, Serum Albumin. Int J Mol Sci. 2022 May 31;23(11):6168. doi: 10.3390/ijms23116168. PMID: 35682848; PMCID: PMC9181795. Q1
12. Kazakov AS, Sofin AD, Avkhacheva NV, Deryusheva EI, Rastrygina VA, Permyakova ME, Uversky VN, Permyakov EA, Permyakov SE. Interferon-β Activity Is Affected by S100B Protein. Int J Mol Sci. 2022 Feb 11;23(4):1997. doi: 10.3390/ijms23041997. PMID: 35216109; PMCID: PMC8877046. Q1
13. Kazakov AS, Deryusheva EI, Sokolov AS, Permyakova ME, Litus EA, Rastrygina VA, Uversky VN, Permyakov EA, Permyakov SE. Erythropoietin Interacts with Specific S100 Proteins. Biomolecules. 2022 Jan 12;12(1):120. doi: 10.3390/biom12010120. PMID: 35053268; PMCID: PMC8773746. Q1
14. Baksheeva VE, Roman AY, Villard C, Devred F, Byrne D, Yatoui D, Zalevsky AO, Vologzhannikova AA, Sokolov AS, Permyakov SE, Golovin AV, Shaw GS, Tsvetkov PO, Zernii EY. Mechanism of Zn2+ and Ca2+ Binding to Human S100A1. Biomolecules. 2021 Dec 3;11(12):1823. doi: 10.3390/biom11121823. PMID: 34944467; PMCID: PMC8699212. Q1
15. Kazakov AS, Sokolov AS, Permyakova ME, Litus EA, Uversky VN, Permyakov EA, Permyakov SE. Specific cytokines of interleukin-6 family interact with S100 proteins. Cell Calcium. 2022 Jan;101:102520. doi: 10.1016/j.ceca.2021.102520. Epub 2021 Dec 14. PMID: 34933172. Q1
16. Baksheeva VE, Baldin AV, Zalevsky AO, Nazipova AA, Kazakov AS, Vladimirov VI, Gorokhovets NV, Devred F, Philippov PP, Bazhin AV, Golovin AV, Zamyatnin AA Jr, Zinchenko DV, Tsvetkov PO, Permyakov SE, Zernii EY. Disulfide Dimerization of Neuronal Calcium Sensor-1: Implications for Zinc and Redox Signaling. Int J Mol Sci. 2021 Nov 22;22(22):12602. doi: 10.3390/ijms222212602. PMID: 34830487; PMCID: PMC8623652. Q1
17. Cheshmedzhieva D, Ilieva S, Permyakov EA, Permyakov SE, Dudev T. Ca2+/Sr2+ Selectivity in Calcium-Sensing Receptor (CaSR): Implications for Strontium's Anti-Osteoporosis Effect. Biomolecules. 2021 Oct 24;11(11):1576. doi: 10.3390/biom11111576. PMID: 34827574; PMCID: PMC8615369. Q1
18. Denesyuk AI, Permyakov EA, Johnson MS, Permyakov SE, Denessiouk K, Uversky VN. Structural and functional significance of the amino acid differences Val35Thr, Ser46Ala, Asn65Ser, and Ala94Ser in 3C-like proteinases from SARS-CoV-2 and SARS-CoV. Int J Biol Macromol. 2021 Dec 15;193(Pt B):2113-2120. doi: 10.1016/j.ijbiomac.2021.11.043. Epub 2021 Nov 11. PMID: 34774600; PMCID: PMC8580570. Q1
19. Vologzhannikova AA, Shevelyova MP, Kazakov AS, Sokolov AS, Borisova NI, Permyakov EA, Kircheva N, Nikolova V, Dudev T, Permyakov SE. Strontium Binding to α-Parvalbumin, a Canonical Calcium-Binding Protein of the "EF-Hand" Family. Biomolecules. 2021 Aug 5;11(8):1158. doi: 10.3390/biom11081158. PMID: 34439824; PMCID: PMC8392015. Q1
20. Litus EA, Kazakov AS, Deryusheva EI, Nemashkalova EL, Shevelyova MP, Nazipova AA, Permyakova ME, Raznikova EV, Uversky VN, Permyakov SE. Serotonin Promotes Serum Albumin Interaction with the Monomeric Amyloid ОІ Peptide. Int J Mol Sci. 2021 May 31;22(11):5896. doi: 10.3390/ijms22115896. PMID: 34072751; PMCID: PMC8199245. Q1
21. Denesyuk AI, Permyakov SE, Johnson MS, Permyakov EA, Uversky VN, Denessiouk K. Structural leitmotif and functional variations of the structural catalytic core in (chymo)trypsin-like serine/cysteine fold proteinases. Int J Biol Macromol. 2021 May 15;179:601-609. doi: 10.1016/j.ijbiomac.2021.03.042. Epub 2021 Mar 10. PMID: 33713772. Q1
22. Vologzhannikova AA, Khorn PA, Shevelyova MP, Kazakov AS, Emelyanenko VI, Permyakov EA, Permyakov SE. The Highly Conservative Cysteine of Oncomodulin as a Feasible Redox Sensor. Biomolecules. 2021 Jan 6;11(1):66. doi: 10.3390/biom11010066. PMID: 33419032; PMCID: PMC7825312. Q1
23. Kazakov AS, Sofin AD, Avkhacheva NV, Denesyuk AI, Deryusheva EI, Rastrygina VA, Sokolov AS, Permyakova ME, Litus EA, Uversky VN, Permyakov EA, Permyakov SE. Interferon Beta Activity Is Modulated via Binding of Specific S100 Proteins. Int J Mol Sci. 2020 Dec 13;21(24):9473. doi: 10.3390/ijms21249473. PMID: 33322098; PMCID: PMC7764042. Q1
24. Denessiouk K, Uversky VN, Permyakov SE, Permyakov EA, Johnson MS, Denesyuk AI. Papain-like cysteine proteinase zone (PCP-zone) and PCP structural catalytic core (PCP-SCC) of enzymes with cysteine proteinase fold. Int J Biol Macromol. 2020 Dec 15;165(Pt A):1438-1446. doi: 10.1016/j.ijbiomac.2020.10.022. Epub 2020 Oct 12. PMID: 33058970; PMCID: PMC7548629. Q1
25. Vladimirov VI, Baksheeva VE, Mikhailova IV, Ismailov RG, Litus EA, Tikhomirova NK, Nazipova AA, Permyakov SE, Zernii EY, Zinchenko DV. A Novel Approach to Bacterial Expression and Purification of Myristoylated Forms of Neuronal Calcium Sensor Proteins. Biomolecules. 2020 Jul 10;10(7):1025. doi: 10.3390/biom10071025. PMID: 32664359; PMCID: PMC7407513. Q1
26. Lapteva YS, Vologzhannikova AA, Sokolov AS, Ismailov RG, Uversky VN, Permyakov SE. In Vitro N-Terminal Acetylation of Bacterially Expressed Parvalbumins by N-Terminal Acetyltransferases from Escherichia coli. Appl Biochem Biotechnol. 2021 May;193(5):1365-1378. doi: 10.1007/s12010-020-03324-8. Epub 2020 May 11. PMID: 32394317. Q2
27. Denesyuk AI, Permyakov SE, Johnson MS, Denessiouk K, Permyakov EA. System Approach for Building of Calcium-Binding Sites in Proteins. Biomolecules. 2020 Apr 11;10(4):588. doi: 10.3390/biom10040588. PMID: 32290360; PMCID: PMC7226230. Q1
28. Permyakov SE, Yundina EN, Kazakov AS, Permyakova ME, Uversky VN, Permyakov EA. Mouse S100G protein exhibits properties characteristic of a calcium sensor. Cell Calcium. 2020 May;87:102185. doi: 10.1016/j.ceca.2020.102185. Epub 2020 Feb 24. PMID: 32114281. Q1
29. Baksheeva VE, Nemashkalova EL, Firsov AM, Zalevsky AO, Vladimirov VI, Tikhomirova NK, Philippov PP, Zamyatnin AA Jr, Zinchenko DV, Antonenko YN, Permyakov SE, Zernii EY. Membrane Binding of Neuronal Calcium Sensor-1: Highly Specific Interaction with Phosphatidylinositol-3-Phosphate. Biomolecules. 2020 Jan 21;10(2):164. doi: 10.3390/biom10020164. PMID: 31973069; PMCID: PMC7072451. Q1
30. Kazakov AS, Mayorov SA, Deryusheva EI, Avkhacheva NV, Denessiouk KA, Denesyuk AI, Rastrygina VA, Permyakov EA, Permyakov SE. Highly specific interaction of monomeric S100P protein with interferon beta. Int J Biol Macromol. 2020 Jan 15;143:633-639. doi: 10.1016/j.ijbiomac.2019.12.039. Epub 2019 Dec 7. PMID: 31821828. Q1
31. Osminkina L. A., Agafilushkina S. N., Kropotkina E. A., Saushkin N. Y., Bozhev I. V., Abramchuk S. S., Samsonova J. V., Gambaryan A. S. Antiviral adsorption activity of porous silicon nanoparticles against different pathogenic human viruses. Bioactive materials, 7, 39-46. (2022). DOI: 10.1016/j.bioactmat.2021.06.001 Q1
32. Tolstik E., Gongalsky M. B., Dierks J., Brand T., Pernecker M., Pervushin N. V., Maksutova D. E., Gonchar K. A., Samsonova J. V., Kopeina G., Sivakov V., Osminkina L. A., Lorenz, K. Raman and fluorescence micro-spectroscopy applied for the monitoring of sunitinib-loaded porous silicon nanocontainers in cardiac cells. Frontiers in Pharmacology, 13: 962763. (2022). DOI: 10.3389/fphar.2022.962763 Q1
33. Gongalsky M. B., Muftieva D. A., Saarinen J. K., Isomaki A., Pervushin N. V., Kopeina G. S., Peltonen L. J., Strachan C. J., Zhivotovsky B., Santos Helder A., Osminkina L. A. Nonresonant CARS Imaging of Porous and Solid Silicon Nanoparticles in Human Cells. ACS Biomaterials Science & Engineering. 8, 10, 4185–4195. (2022). DOI: 10.1021/acsbiomaterials.1c00771 Q1
34. Koyuda D. A., Titova S. S., Tsurikova U. A., Kakuliia I. S., Parinova E. V., Chuvenkova O. A., Chumakov R.G., Lebedev A.M., Kannykin S.V., Osminkina L.A., Turishchev, S. Y. Composition and electronic structure of porous silicon nanoparticles after oxidation under air-or freeze-drying conditions. Materials Letters, 312, 131608. (2022). DOI: 10.1016/j.matlet.2021.131608 Q1
35. Kartashova A. D., Gonchar K. A., Chermoshentsev D. A., Alekseeva E. A., Gongalsky M. B., Bozhev I. V., Eliseev A. A., Dyakov S. A., Samsonova J. V., Osminkina L. A. Surface-Enhanced Raman Scattering-Active Gold-Decorated Silicon Nanowire Substrates for Label-Free Detection of Bilirubin. ACS Biomaterials Science & Engineering. 8, 10, 4175–4184. (2022). DOI: 10.1021/acsbiomaterials.1c00728 Q1
36. Gonchar, K. A., Moiseev, D. V., Bozhev, I. V., & Osminkina, L. A. Influence of H2O2 concentration on the structural and photoluminescent properties of porous silicon nanowires fabricated by metal-assisted chemical etching. Materials Science in Semiconductor Processing, 125, 105644 (2021). DOI: 10.1016/j.mssp.2020.105644 Q1
37. Gongalsky M. B., Pervushin N. V., Maksutova D. E., Tsurikova U. A., Putintsev P. P., Gyuppenen O. D., Evstratova Y. V., Shalygina O. A., Kopeina G. S., Kudryavtsev A. A., Zhivotovsky B., Osminkina L. A. Optical Monitoring of the Biodegradation of Porous and Solid Silicon Nanoparticles. Nanomaterials, 11(9), 2167. (2021). DOI: 10.3390/nano11092167 Q1
38. Timchenko, M., Molchanov, V., Molchanov, M., Timchenko, A., & Sogorin, E. (2022). Investigation of lipolytic activity of the red king crab hepatopancreas homogenate by NMR spectroscopy. PeerJ, 10, e12742. Q1
39. Pozdnyakov, N., Shilov, S., Lukin, A., Bolshakov, M., & Sogorin, E. (2022). Investigation of enzymatic hydrolysis kinetics of soy protein isolate: laboratory and semi-industrial scale. Bioresources and Bioprocessing, 9(1), 37. Q1
40. Ponomareva, T., Timchenko, M., Filippov, M., Lapaev, S., & Sogorin, E. (2021). Prospects of red king crab hepatopancreas processing: fundamental and applied biochemistry. Recycling, 6(1), 3. Q1
41. Sliadovskii, D., Ponomareva, T., Molchanov, M., Pozdnyakova-Filatova, I., Timchenko, M., Marchenkov, V., Gusev, O. & Sogorin, E. (2021). β-elimination of hyaluronate by red king crab hyaluronidase. Scientific Reports, 11(1), 22600. Q1
42. Chernyshev, V.S.; Chuprov-Netochin, R.N.; Tsydenzhapova, E.; Svirshchevskaya, E.V.; Poltavtseva, R.A.; Merdalimova, A.; Yashchenok, A.; Keshelava, A.; Sorokin, K.; Keshelava, V.; et al. Asymmetric depth-filtration: A versatile and scalable method for high-yield isolation of extracellular vesicles with low contamination. J Extracell Vesicles 2022, 11, e12256, doi:10.1002/jev2.12256. Q1