Dmitry Shcherbakov

Dr. Dmitry Shcherbakov

Altai State University, Barnaul, Altayskiy Kray, Russia
orcid

Research Focus & Metrics

Academic Career Length

15Years (2012-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

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13 April 2021 in Molecules
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ASAnastasiya Sokolova
Anastasiya Sokolova
VPValentina Putilova
Valentina Putilova
Olga I. YarovayaOlga I. Yarovaya
Olga I. Yarovaya
AZAnastasiya V. Zybkina
Anastasiya V. Zybkina
EMEkaterina Mordvinova
Ekaterina Mordvinova
NSNariman F. Salakhutdinov
Nariman F. Salakhutdinov
To date, the ‘one bug-one drug’ approach to antiviral drug development cannot effectively respond to the constant threat posed by an increasing diversity of viruses causing outbreaks of viral infections that turn out to be pathogenic for humans. Evidently, there is an urgent need for new strategies to develop efficient antiviral agents with broad-spectrum activities. In this paper, we identified camphene derivatives that showed broad antiviral activities in vitro against a panel of enveloped pathogenic viruses, including influenza virus A/PR/8/34 (H1N1), Ebola virus (EBOV), and the Hantaan virus. The lead-compound 2a, with pyrrolidine cycle in its structure, displayed antiviral activity against influenza virus (IC50 = 45.3 µM), Ebola pseudotype viruses (IC50 = 0.12 µM), and authentic EBOV (IC50 = 18.3 µM), as well as against pseudoviruses with Hantaan virus Gn-Gc glycoprotein (IC50 = 9.1 µM). The results of antiviral activity studies using pseudotype viruses and molecular modeling suggest that surface proteins of the viruses required for the fusion process between viral and cellular membranes are the likely target of compound 2a. The key structural fragments responsible for efficient binding are the bicyclic natural framework and the nitrogen atom. These data encourage us to conduct further investigations using bicyclic monoterpenoids as a scaffold for the rational design of membrane-fusion targeting inhibitors.

9 January 2022 in Vaccines
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IMIuliia Merkuleva
Iuliia Merkuleva
DSDmitry Shcherbakov
Dmitry Shcherbakov
MBMariya Borgoyakova
Mariya Borgoyakova
DSDaniil Vasilyevich Shanshin
Daniil Vasilyevich Shanshin
ARAndrey P. Rudometov
Andrey P. Rudometov
AIAlexander Ilyichev
Alexander Ilyichev
The receptor-binding domain (RBD) of the protein S SARS-CoV-2 is considered to be one of the appealing targets for developing a vaccine against COVID-19. The choice of an expression system is essential when developing subunit vaccines, as it ensures the effective synthesis of the correctly folded target protein, and maintains its antigenic and immunogenic properties. Here, we describe the production of a recombinant RBD protein using prokaryotic (pRBD) and mammalian (mRBD) expression systems, and compare the immunogenicity of prokaryotic and mammalian-expressed RBD using a BALB/c mice model. An analysis of the sera from mice immunized with both variants of the protein revealed that the mRBD expressed in CHO cells provides a significantly stronger humoral immune response compared with the RBD expressed in E.coli cells. A specific antibody titer of sera from mice immunized with mRBD was ten-fold higher than the sera from the mice that received pRBD in ELISA, and about 100-fold higher in a neutralization test. The data obtained suggests that mRBD is capable of inducing neutralizing antibodies against SARS-CoV-2.

21 January 2021 in Vaccines
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LKLarisa I. Karpenko
Larisa I. Karpenko
ARAndrey P. Rudometov
Andrey P. Rudometov
SSSergei V. Sharabrin
Sergei V. Sharabrin
DSDmitry Shcherbakov
Dmitry Shcherbakov
MBMariya Borgoyakova
Mariya Borgoyakova
AIAlexander Ilyichev
Alexander Ilyichev
One of the key stages in the development of mRNA vaccines is their delivery. Along with liposome, other materials are being developed for mRNA delivery that can ensure both the safety and effectiveness of the vaccine, and also facilitate its storage and transportation. In this study, we investigated the polyglucin:spermidine conjugate as a carrier of an mRNA-RBD vaccine encoding the receptor binding domain (RBD) of the SARS-CoV-2 spike protein. The conditions for the self-assembling of mRNA-PGS complexes were optimized, including the selection of the mRNA:PGS charge ratios. Using dynamic and electrophoretic light scattering it was shown that the most monodisperse suspension of nanoparticles was formed at the mRNA:PGS charge ratio equal to 1:5. The average hydrodynamic particles diameter was determined, and it was confirmed by electron microscopy. The evaluation of the zeta potential of the investigated complexes showed that the particles surface charge was close to the zero point. This may indicate that the positively charged PGS conjugate has completely packed the negatively charged mRNA molecules. It has been shown that the packaging of mRNA-RBD into the PGS envelope leads to increased production of specific antibodies with virus-neutralizing activity in immunized BALB/c mice. Our results showed that the proposed polycationic polyglucin:spermidine conjugate can be considered a promising and safe means to the delivery of mRNA vaccines, in particular mRNA vaccines against SARS-CoV-2.

14 June 2022 in Viruses
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Olga I. YarovayaOlga I. Yarovaya
Olga I. Yarovaya
DSDmitry Shcherbakov
Dmitry Shcherbakov
Sophia S. BorisevichSophia S. Borisevich
Sophia S. Borisevich
ASAnastasiya Sokolova
Anastasiya Sokolova
MGMaxim Gureev
Maxim Gureev
NSNariman F. Salakhutdinov
Nariman F. Salakhutdinov
In the present work we studied the antiviral activity of the home library of monoterpenoid derivatives using the pseudoviral systems of our development, which have glycoproteins of the SARS-CoV-2 virus strains Wuhan and Delta on their surface. We found that borneol derivatives with a tertiary nitrogen atom can exhibit activity at the early stages of viral replication. In order to search for potential binding sites of ligands with glycoprotein, we carried out additional biological tests to study the inhibition of the re-receptor-binding domain of protein S. For the compounds that showed activity on the pseudoviral system, a study using three strains of the infectious SARS-CoV-2 virus was carried out. As a result, two leader compounds were found that showed activity on the Wuhan, Delta, and Omicron strains. Based on the biological results, we searched for the potential binding site of the leader compounds using molecular dynamics and molecular docking methods. We suggested that the compounds can bind in conserved regions of the central helices and/or heptad repeats of glycoprotein S of SARS-CoV-2 viruses.

1 November 2018 in Applied Biochemistry and Microbiology
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SBS. V. Belenkaya
S. V. Belenkaya
ARA. P. Rudometov
A. P. Rudometov
DSDmitry Shcherbakov
Dmitry Shcherbakov
DBD. V. Balabova
D. V. Balabova
AKA. V. Kriger
A. V. Kriger
VEVadim Elchaninov
Vadim Elchaninov
This paper discusses biochemical properties of the recombinant chymosin in alpaca ( Vicugna pacos), which influence the production of rennet cheeses. These properties determine its value in...

1 May 2019 in Russian Chemical Bulletin
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ASAnastasiya Sokolova
Anastasiya Sokolova
DBD. V. Baranova
D. V. Baranova
Olga I. YarovayaOlga I. Yarovaya
Olga I. Yarovaya
DBD. S. Baev
D. S. Baev
OPO. A. Polezhaeva
O. A. Polezhaeva
NSN. F. Salakhutdinov
N. F. Salakhutdinov