Artur Zalevskii, PhD
Postdoctoral Scholar
Bioengineering
School of Pharmacy

Education & Training

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• PhD Mathematical biology, Bioinformatics Lomonosov Moscow State University 12/2019
• Specialist Bioengineering and Bioinformatics Lomonosov Moscow State University 06/2015

Interests

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• Molecular modeling
• Scientific outreach
• Bioinformatics
• Structural biology
• Free Software

Websites

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• Google Scholar (scholar.google.com)

Publications (36)

Top publication keywords:
SerpinsCalciumProtein ConformationG-Protein-Coupled Receptor Kinase 1ProteinsPhosphatidylinositol PhosphatesS100 ProteinsDatabases, ProteinEye ProteinsNeuropeptidesNerve Growth FactorsZincAptamers, NucleotideNeuronal Calcium-Sensor ProteinsMolecular Docking Simulation

• IHMValidation: Assessment of Integrative Structure Models Deposited to the Protein Data Bank.
  Journal of molecular biology 2025 Zalevsky AO, Vallat B, Webb BM, Tangmunarunkit H, Sekharan MR, Shafaeibejestan A, Ganesan S, Sagendorf J, Jeffries CM, Trewhella J, Graziadei A, Vizcaíno JA, Leitner A, Rappsilber J, Peisach E, Flatt …
• RCSB Protein Data Bank: Delivering integrative structures alongside experimental structures and computed structure models.
  Nucleic acids research 2025 Vallat B, Rose Y, Piehl DW, Duarte JM, Bittrich S, Bi C, Segura J, Zalevsky A, Sekharan MR, Webb BM, Bhikadiya C, Voigt M, Henry J, Chao H, Pingale A, Raymond D, Sagendorf J, Peisach E, Feng Z, …
• AlphaCross-XL: A Seamless Tool for Automated and Proteome-Scale Mapping of Cross-Linked Peptides Onto 3D Protein Structures.
  Molecular & cellular proteomics : MCP 2025 Shenoy SV, Biswas D, Zalevsky A, Kishishita A, Verma A, Upadhay I, He Y, Sali A, Viner R, Mandal K, Srivastava S, Wiita AP
• A role of pigment epithelium-derived factor in zinc-mediated mechanism of neurodegeneration in glaucoma.
  Communications biology 2025 Chistyakov DV, Belousov AS, Shevelyova MP, Iomdina EN, Baksheeva VE, Shebardina NG, Moysenovich AM, Bulgakov TK, Petrov SY, Shishkin ML, Tulush SS, Tiulina VV, Pogodina EI, Gancharova OS, Filippova OM…
• PDB-IHM: A System for Deposition, Curation, Validation, and Dissemination of Integrative Structures.
  Journal of molecular biology 2025 Vallat B, Webb BM, Zalevsky A, Tangmunarunkit H, Sekharan MR, Voinea S, Shafaeibejestan A, Sagendorf J, Hoch JC, Kurisu G, Morris KL, Velankar S, Kesselman C, Burley SK, Berman HM, Sali A

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• Updated resources for exploring experimentally-determined PDB structures and Computed Structure Models at the RCSB Protein Data Bank.
  Nucleic acids research 2025 Burley SK, Bhatt R, Bhikadiya C, Bi C, Biester A, Biswas P, Bittrich S, Blaumann S, Brown R, Chao H, Chithari VR, Craig PA, Crichlow GV, Duarte JM, Dutta S, Feng Z, Flatt JW, Ghosh S, Goodsell DS, …
• Illuminating the function of the orphan transporter, SLC22A10, in humans and other primates.
  Nature communications 2024 Yee SW, Ferrández-Peral L, Alentorn-Moron P, Fontsere C, Ceylan M, Koleske ML, Handin N, Artegoitia VM, Lara G, Chien HC, Zhou X, Dainat J, Zalevsky A, Sali A, Brand CM, Wolfreys FD, Yang J, Gestwicki…
• IHMCIF: An Extension of the PDBx/mmCIF Data Standard for Integrative Structure Determination Methods.
  Journal of molecular biology 2024 Vallat B, Webb BM, Westbrook JD, Goddard TD, Hanke CA, Graziadei A, Peisach E, Zalevsky A, Sagendorf J, Tangmunarunkit H, Voinea S, Sekharan M, Yu J, Bonvin AAMJJ, DiMaio F, Hummer G, Meiler J, …
• Structures, functions and adaptations of the human LINE-1 ORF2 protein.
  Nature 2023 Baldwin ET, van Eeuwen T, Hoyos D, Zalevsky A, Tchesnokov EP, Sánchez R, Miller BD, Di Stefano LH, Ruiz FX, Hancock M, Isik E, Mendez-Dorantes C, Walpole T, Nichols C, Wan P, Riento K, Halls-Kass R, …
• RCSB Protein Data Bank (RCSB.org): delivery of experimentally-determined PDB structures alongside one million computed structure models of proteins from artificial intelligence/machine learning.
  Nucleic acids research 2023 Burley SK, Bhikadiya C, Bi C, Bittrich S, Chao H, Chen L, Craig PA, Crichlow GV, Dalenberg K, Duarte JM, Dutta S, Fayazi M, Feng Z, Flatt JW, Ganesan S, Ghosh S, Goodsell DS, Green RK, Guranovic V, …
• RCSB Protein Data bank: Tools for visualizing and understanding biological macromolecules in 3D.
  Protein science : a publication of the Protein Society 2022 Burley SK, Bhikadiya C, Bi C, Bittrich S, Chao H, Chen L, Craig PA, Crichlow GV, Dalenberg K, Duarte JM, Dutta S, Fayazi M, Feng Z, Flatt JW, Ganesan SJ, Ghosh S, Goodsell DS, Green RK, Guranovic V, …
• Extracellular Vesicles in Chronic Demyelinating Diseases: Prospects in Treatment and Diagnosis of Autoimmune Neurological Disorders.
  Life (Basel, Switzerland) 2022 Ovchinnikova LA, Zalevsky AO, Lomakin YA
• A structural biology community assessment of AlphaFold2 applications.
  Nature structural & molecular biology 2022 Akdel M, Pires DEV, Pardo EP, Jänes J, Zalevsky AO, Mészáros B, Bryant P, Good LL, Laskowski RA, Pozzati G, Shenoy A, Zhu W, Kundrotas P, Serra VR, Rodrigues CHM, Dunham AS, Burke D, Borkakoti N, …
• Protein Design: From the Aspect of Water Solubility and Stability.
  Chemical reviews 2022 Qing R, Hao S, Smorodina E, Jin D, Zalevsky A, Zhang S
• Zinc Modulation of Neuronal Calcium Sensor Proteins: Three Modes of Interaction with Different Structural Outcomes.
  Biomolecules 2022 Baksheeva VE, Tsvetkov PO, Zalevsky AO, Vladimirov VI, Gorokhovets NV, Zinchenko DV, Permyakov SE, Devred F, Zernii EY
• SERS-based biosensor with Raman-active external responsive element for rapid determination of adenosine monophosphate.
  Analytica chimica acta 2022 Zavyalova E, Tikhonova D, Zhdanov G, Rudakova E, Alferova V, Moiseenko A, Kamzeeva P, Khrulev A, Zalevsky A, Arutyunyan A, Novikov R, Kukushkin V, Aralov A
• Deep Functional Profiling of Wild Animal Microbiomes Reveals Probiotic Bacillus pumilus Strains with a Common Biosynthetic Fingerprint.
  International journal of molecular sciences 2022 Baranova MN, Kudzhaev AM, Mokrushina YA, Babenko VV, Kornienko MA, Malakhova MV, Yudin VG, Rubtsova MP, Zalevsky A, Belozerova OA, Kovalchuk S, Zhuravlev YN, Ilina EN, Gabibov AG, Smirnov IV, Terekhov…
• Mechanism of Zn2+ and Ca2+ Binding to Human S100A1.
  Biomolecules 2021 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
• Disulfide Dimerization of Neuronal Calcium Sensor-1: Implications for Zinc and Redox Signaling.
  International journal of molecular sciences 2021 Baksheeva VE, Baldin AV, Zalevsky AO, Nazipova AA, Kazakov AS, Vladimirov VI, Gorokhovets NV, Devred F, Philippov PP, Bazhin AV, Golovin AV, Zamyatnin AA, Zinchenko DV, Tsvetkov PO, Permyakov SE, …
• Molecular Coevolution of Nuclear and Nucleolar Localization Signals inside the Basic Domain of HIV-1 Tat.
  Journal of virology 2021 Kurnaeva MA, Zalevsky AO, Arifulin EA, Lisitsyna OM, Tvorogova AV, Shubina MY, Bourenkov GP, Tikhomirova MA, Potashnikova DM, Kachalova AI, Musinova YR, Golovin AV, Vassetzky YS, Sheval EV
• Modulation of Toll-like receptor 1 intracellular domain structure and activity by Zn2+ ions.
  Communications biology 2021 Lushpa VA, Goncharuk MV, Lin C, Zalevsky AO, Talyzina IA, Luginina AP, Vakhrameev DD, Shevtsov MB, Goncharuk SA, Arseniev AS, Borshchevskiy VI, Wang X, Mineev KS
• In silico Screening and Behavioral Validation of a Novel Peptide, LCGA-17, With Anxiolytic-Like Properties.
  Frontiers in neuroscience 2021 Malyshev AV, Sukhanova IA, Zlobin AS, Gedzun VR, Pavshintsev VV, Vasileva EV, Zalevsky AO, Doronin II, Mitkin NA, Golovin AV, Lovat ML, Kovalev GI, Zolotarev YA, Kuchumov AR, Babkin GA, Luscher B
• Reprogramming Extracellular Vesicles for Protein Therapeutics Delivery.
  Pharmaceutics 2021 Ovchinnikova LA, Terekhov SS, Ziganshin RH, Bagrov DV, Filimonova IN, Zalevsky AO, Lomakin YA
• Genomic signatures of recombination in a natural population of the bdelloid rotifer Adineta vaga.
  Nature communications 2020 Vakhrusheva OA, Mnatsakanova EA, Galimov YR, Neretina TV, Gerasimov ES, Naumenko SA, Ozerova SG, Zalevsky AO, Yushenova IA, Rodriguez F, Arkhipova IR, Penin AA, Logacheva MD, Bazykin GA, Kondrashov AS
• Zinc Binds to RRM2 Peptide of TDP-43.
  International journal of molecular sciences 2020 Golovin AV, Devred F, Yatoui D, Roman AY, Zalevsky AO, Puppo R, Lebrun R, Guerlesquin F, Tsvetkov PO
• Alterations in proteome of human sclera associated with primary open-angle glaucoma involve proteins participating in regulation of the extracellular matrix.
  Molecular vision 2020 Iomdina EN, Tikhomirova NK, Bessmertny AM, Serebryakova MV, Baksheeva VE, Zalevsky AO, Kotelin VI, Kiseleva OA, Kosakyan SM, Zamyatnin AA, Philippov PP, Zernii EY
• Multiscale computation delivers organophosphorus reactivity and stereoselectivity to immunoglobulin scavengers.
  Proceedings of the National Academy of Sciences of the United States of America 2020 Mokrushina YA, Golovin AV, Smirnov IV, Chatziefthimiou SD, Stepanova AV, Bobik TV, Zalevsky AO, Zlobin AS, Konovalov KA, Terekhov SS, Stepanov AV, Pipiya SO, Shamborant OG, Round E, Belogurov AA, …
• A Fluorescent Assay to Search for Inhibitors of HIV-1 Integrase Interactions with Human Ku70 Protein, and Its Application for Characterization of Oligonucleotide Inhibitors.
  Biomolecules 2020 Galkin S, Rozina A, Zalevsky A, Gottikh M, Anisenko A
• A kinase bioscavenger provides antibiotic resistance by extremely tight substrate binding.
  Science advances 2020 Terekhov SS, Mokrushina YA, Nazarov AS, Zlobin A, Zalevsky A, Bourenkov G, Golovin A, Belogurov A, Osterman IA, Kulikova AA, Mitkevich VA, Lou HJ, Turk BE, Wilmanns M, Smirnov IV, Altman S, Gabibov AG
• Membrane Binding of Neuronal Calcium Sensor-1: Highly Specific Interaction with Phosphatidylinositol-3-Phosphate.
  Biomolecules 2020 Baksheeva VE, Nemashkalova EL, Firsov AM, Zalevsky AO, Vladimirov VI, Tikhomirova NK, Philippov PP, Zamyatnin AA, Zinchenko DV, Antonenko YN, Permyakov SE, Zernii EY
• NHEJ pathway is involved in post-integrational DNA repair due to Ku70 binding to HIV-1 integrase.
  Retrovirology 2019 Knyazhanskaya E, Anisenko A, Shadrina O, Kalinina A, Zatsepin T, Zalevsky A, Mazurov D, Gottikh M
• Mitochondria as a Source and a Target for Uremic Toxins.
  International journal of molecular sciences 2019 Popkov VA, Silachev DN, Zalevsky AO, Zorov DB, Plotnikov EY
• Putative Mechanisms Underlying High Inhibitory Activities of Bimodular DNA Aptamers to Thrombin.
  Biomolecules 2019 Zavyalova EG, Legatova VA, Alieva RS, Zalevsky AO, Tashlitsky VN, Arutyunyan AM, Kopylov AM
• PeptoGrid-Rescoring Function for AutoDock Vina to Identify New Bioactive Molecules from Short Peptide Libraries.
  Molecules (Basel, Switzerland) 2019 Zalevsky AO, Zlobin AS, Gedzun VR, Reshetnikov RV, Lovat ML, Malyshev AV, Doronin II, Babkin GA, Golovin AV
• QM/MM Description of Newly Selected Catalytic Bioscavengers Against Organophosphorus Compounds Revealed Reactivation Stimulus Mediated by Histidine Residue in the Acyl-Binding Loop.
  Frontiers in pharmacology 2018 Zlobin A, Mokrushina Y, Terekhov S, Zalevsky A, Bobik T, Stepanova A, Aliseychik M, Kartseva O, Panteleev S, Golovin A, Belogurov A, Gabibov A, Smirnov I
• A coarse-grained model for DNA origami.
  Nucleic acids research 2018 Reshetnikov RV, Stolyarova AV, Zalevsky AO, Panteleev DY, Pavlova GV, Klinov DV, Golovin AV, Protopopova AD