Olga Sokolova

Olga Sokolova
Lomonosov Moscow State University | MSU · Faculty of Biology

PhD, D.Sc

About

180
Publications
15,135
Reads
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1,747
Citations
Education
November 1987 - June 1990
Lomonosov Moscow State University
Field of study
  • Physiology

Publications

Publications (180)
Article
Full-text available
Currently, SARS-CoV-2 causing coronavirus disease 2019 (COVID-19) is responsible for one of the most deleterious pandemics of our time. The interaction between the ACE2 receptors at the surface of human cells and the viral Spike (S) protein triggers the infection, making the receptor-binding domain (RBD) of the SARS-CoV-2 S-protein a focal target f...
Article
Full-text available
Amphiphilic copolymers consisting of alternating hydrophilic and hydrophobic units account for a major recent methodical breakthrough in the investigations of membrane proteins. Styrene–maleic acid (SMA), diisobutylene–maleic acid (DIBMA), and related copolymers have been shown to extract membrane proteins directly from lipid membranes without the...
Article
Full-text available
FACT is a histone chaperone that participates in nucleosome removal and reassembly during transcription and replication. We used electron microscopy to study FACT, FACT:Nhp6 and FACT:Nhp6:nucleosome complexes, and found that all complexes adopt broad ranges of configurations, indicating high flexibility. We found unexpectedly that the DNA binding p...
Article
Introduction. Giant phiKZ-like bacteriophages have a unique protein formation inside the capsid, an inner body (IB) with supercoiled DNA molecule wrapped around it. Standard cryo-electron microscopy (cryo-EM) approaches do not allow to distinguish this structure from the surrounding nucleic acid of the phage. We previously developed an analytical a...
Article
Chaperonins provide proper folding of proteins in vivo and in vitro and, as was thought until recently, are characteristic of prokaryotes, eukaryotes, and archaea. However, it turned out that some bacteria viruses (bacteriophages) encode their own chaperonins. This review presents results of the investigations of the first representatives of this n...
Article
Full-text available
Multidrug-resistant Klebsiella pneumoniae strains are one of the major causes of nosocomial infections caused by the antibiotic-resistant bacteria. There are different options for dealing with this threat, among which is the clinical application of bacteriophages. The study was aimed to isolate and describe a virulent bactriophage, having the poten...
Article
Full-text available
The molecular chaperone GroEL is designed to promote protein folding and prevent aggregation. However, the interaction between GroEL and the prion protein, PrPC, could lead to pathogenic transformation of the latter to the aggregation-prone PrPSc form. Here, the molecular basis of the interactions in the GroEL–PrP complex is studied with cryo-EM an...
Article
Full-text available
The GroEL–GroES chaperonin complex is a bacterial protein folding system, functioning in an ATP-dependent manner. Upon ATP binding and hydrolysis, it undergoes multiple stages linked to substrate protein binding, folding and release. Structural methods helped to reveal several conformational states and provide more information about the chaperonin...
Article
Full-text available
The severe COVID‐19 pandemic drives the research toward the SARS‐CoV‐2 virion structure and the possible therapies against it. Here, we characterized the β‐propiolactone inactivated SARS‐CoV‐2 virions using transmission electron microscopy (TEM) and atomic force microscopy (AFM). We compared the SARS‐CoV‐2 samples purified by two consecutive chroma...
Article
The roughly purified extract of E. coli proteins has been studied by cryoelectron microscopy, the class-sums containing 2D projections of two proteins (β-galactosidase and 2-oxoglutarate dehydrogenase complex catalytic domain (ODC-CD)), identified in an extract by tandem mass spectrometry, have been distinguished. The structures of these proteins h...
Article
Full-text available
Acinetobacter baumannii appears to be one of the most crucial nosocomial pathogens. A possible component of antimicrobial therapy for infections caused by extremely drug-resistant A. baumannii strains may be specific lytic bacteriophages or phage-derived enzymes. In the present study, we observe the biological features, genomic organization, and ph...
Article
Full-text available
The unprecedented in recent history global COVID-19 pandemic urged the implementation of all existing vaccine platforms to ensure the availability of the vaccines against COVID-19 to every country in the world. Despite the multitude of high-quality papers describing clinical trials of different vaccine products, basic detailed data on general toxic...
Article
Full-text available
Ferritins comprise a conservative family of proteins found in all species and play an essential role in resistance to redox stress, immune response, and cell differentiation. Sponges (Porifera) are the oldest Metazoa that show unique plasticity and regenerative potential. Here, we characterize the ferritins of two cold-water sponges using proteomic...
Preprint
Full-text available
FACT is a histone chaperone that unfolds nucleosomes without ATP hydrolysis. We used electron microscopy to study FACT and FACT:nucleosome complexes, and found that both adopt broad ranges of configurations, indicating high flexibility. We found unexpectedly that the DNA binding protein Nhp6 also binds to the C-terminal tails of FACT subunits, indu...
Preprint
Full-text available
FACT is a histone chaperone that unfolds nucleosomes without ATP hydrolysis. We used electron microscopy to study FACT and FACT:nucleosome complexes, and found that both adopt broad ranges of configurations, indicating high flexibility. We found unexpectedly that the DNA binding protein Nhp6 also binds to the C-terminal tails of FACT subunits, indu...
Article
Background: We have recently developed a method to visualize the distribution of DNA in the cytoplasm of bacteria by analytical electron microscopy (EM), using the Phosphorus signal (dsDNA contains two phosphate groups per each nucleotide pair), that was detected and mapped onto the image of the cell (Danilova et al, 2020; Loiko et al, 2020). Here...
Article
Background: Acinetobacter baumannii is an opportunistic pathogen and one of the six most important multidrug resistant microorganisms in hospitals worldwide. Some of its strains are resistant to most of the antibiotics, A. baumannii is included into the Priority 1 part of Global Priority List of Antibiotic-resistant Bacteria. Phage therapy is consi...
Article
Full-text available
Background: Vaccination is the most effective tool for reducing the morbidity and mortality of COVID-19. Particular interest is the development of whole-virion inactivated vaccines, since such vaccines include a complete set of viral structural proteins. One of the requirements for the whole-virion vaccines is the guarantee of complete virus inacti...
Article
Background: Histone chaperon FACT (“FAcilitates Chromatin Transcription”) is a multifunctional and conserved eukaryotic protein involved in DNA transcription, replication and repair; which can reversibly unfold nucleosomes in presence of ATP. FACT is necessary for the viability and growth of breast tumor cells meanwhile in normal cells it can be kn...
Article
Background: The spike glycoprotein of SARS-coronavirus mediates the early events leading to infection of cells, including fusion of the viral and cellular membranes. The spike is a type I membrane glycoprotein that possesses a conserved transmembrane anchor and an unusual cysteine-rich domain that bridges the putative junction of the anchor and the...
Article
Background: Chaperonins are a family of molecular chaperones Hsp60 (heat shock proteins 60). GroEL is a bacterial chaperonin. It ensures the correct folding of proteins, using the energy of ATP hydrolysis. Three-dimensional reconstructions of its predicted orthologs were obtained and biochemically characterized in free and nucleotide-bound states f...
Article
Background: According to the current view on the extracellular matrix (ECM) composition and functions, it includes not only structural proteins and components of cell adhesion, but also various deposited components, including enzymes involved in ECM remodeling, growth factors, and matrix-bound vesicles (MBV). MBV can presumably participate in the f...
Article
Background: The severe COVID-19 pandemic started in December 2019 is caused by the SARS-CoV-2 virus. The SARS-CoV-2 virion consists of a positive-sense single-stranded RNA (ssRNA), bound with the nucleocapsid N protein and surrounded by a lipid membrane with the embedded glycoprotein S and the transmembrane proteins M and E. The structure of inacti...
Article
Full-text available
Background: Wsc1 is the best studied of the five mechanosensors of the cell wall integrity (CWI) signal transduction pathway in Saccharomyces cerevisiae. In genetic and biophysical studies, Wsc1 functions were assessed either in living yeast cells or in crude cell extracts. So far, no attempts to purify the sensor and determine its structure have b...
Article
Background: Bacterial genomic DNA interacts with nucleoid-associated proteins (NAPs) and is located in a highly condensed and functional organized form in the nucleoid of the cell. The structure of the bacterial nucleoid is still awaiting its determination in high resolution. However, recent intensive research showed that condensed DNA in the bacte...
Article
Full-text available
Acinetobacter baumannii, one of the most significant nosocomial pathogens, is capable of producing structurally diverse capsular polysaccharides (CPSs) which are the primary receptors for A. baumannii bacteriophages encoding polysaccharide-degrading enzymes. To date, bacterial viruses specifically infecting A. baumannii strains belonging to more th...
Preprint
Full-text available
SARS-CoV-2 causing coronavirus disease 2019 (COVID-19) is responsible for one of the most deleterious pandemics of our time. The interaction between the ACE2 receptors at the surface of human cells and the viral Spike (S) protein triggers the infection making the receptor-binding domain (RBD) of the SARS-CoV-2 S-protein a focal target for the neutr...
Article
In this study, we describe an optimized method of obtaining virus-like particles (VLPs) of the recombinant hepatitis C virus (HCV) core protein (HCcAg) expressed in yeast cells (Pichia pastoris), which can be used for the construction of diagnostic test systems and vaccine engineering. The described simplified procedure was developed to enable in v...
Article
Full-text available
The cell wall sensor Wsc1 belongs to a small family of transmembrane proteins, which are crucial to sustain cell integrity in yeast and other fungi. Wsc1 acts as a mechanosensor of the cell wall integrity (CWI) signal transduction pathway which responds to external stresses. Here we report on the purification of Wsc1 by its trapping in water-solubl...
Article
Full-text available
Acinetobacter baumannii is one of the most clinically important nosocomial pathogens. The World Health Organisation refers it to its «critical priority» category to develop new strategies for effective therapy. This microorganism is capable of producing structurally diverse capsular polysaccharides (CPSs), which serve as primary receptors for A. ba...
Article
Full-text available
The giant phiKZ phage infection induces the appearance of a pseudo-nucleus inside the bacterial cytoplasm. Here, we used RT-PCR, fluorescent in situ hybridization (FISH), electron tomography, and analytical electron microscopy to study the morphology of this unique nucleus-like shell and to demonstrate the distribution of phiKZ and bacterial DNA in...
Data
Table 1S. Calculation of the coefficient reflecting the increase in the amount of extracted bacterial DNA during incubation of cells with the antibiotic rifampicin. Figure 1S. The empty phage particles attached to phiKZ-infected cell. 10 minutes of infection. White arrows indicate RCs, Black arrows indicate empty phage particles on cell outer memb...
Article
Full-text available
One of the adaptive strategies for the constantly changing conditions of the environment utilized in bacterial cells involves the condensation of DNA in complex with the DNA-binding protein, Dps. With the use of electron microscopy and electron tomography, we observed several morphologically different types of DNA condensation in dormant Escherichi...
Preprint
Full-text available
Bacteria develop various defense mechanisms against stresses, including the bacteriophage infection. The giant phiKZ phage infection induced the appearance of a pseudo-nucleus inside the bacterial cytoplasm. Here, we used FISH, electron tomography and analytical electron microscopy to study the morphology of this unique nucleus-like shell and to de...
Article
Structural Investigation of the Complex of Actin with Filamin from Entamoeba Histolytica - Anna Vakhrusheva, Samudrala Gourinath, Olga Sokolova
Article
Cryo-EM Structure of the Novel Viral Chaperonin, Encoded by Gene 228 of Bacteriophage AR9 Bacillus Subtilis - Olga Sokolova, Evgeny Pichkur, Lidia Kurochkina
Article
The Cytoplasmic Domain of Voltage-dependent Potassium Channels of the Eag Family May Play a Role in the Regulation of Ion Transport - Julia Kacher, Grigory Gluhov, Denis Abramochkin, Olga Sokolova
Article
Cryo-EM Structure of GroEL in Complex with the Prion Protein - Evgeny Pichkur, Sofia Kudryavtseva, Olga Sokolova, Tatiana Stanishneva-Konovalova
Article
Single-molecule Imaging of Shaker Ion Channel Stabilized by Detergent and Amphiphilic Copolymer - Dmitry Bagrov, Julia Kacher, Grigory Gluhov, Olga Sokolova, Konstantin Shaitan
Conference Paper
Cryo-EM Analysis and de Novo Modeling of E. Coli dihydrolipoamide Succinyltransferase Catalytic Domain Structure - Vasily Mikirtumov, Evgeny Pichkur, Olga Tikhonova, Lidia Kurochkina, Olga Sokolova
Article
Full-text available
Electron Tomography Revealed Compact DNA in the Nucleus-like Compartment, Formed in the Bacterial Cell During Infection by the phiKZ Bacteriophage - Yana Danilova, Maria Yakunina, Andrey Moiseenko, Victoria Belousova, Innokentiy Vishnyakov, Olga Sokolova
Article
Obtaining the VLPs from Recombinant Core Protein of Hepatitis C Virus (HCV) - Anastasia Pechelyulko, Y Tarakanova, Olga Sokolova, Y Massino, Alexander Dmitriev, O Segal, Mary Lichutina
Article
Early detection and repair of damaged DNA is important for cell functioning and survival. The recently proposed mechanism of intranucleosomal loop formation suggests the relaxation of DNA supercoiling accumulated during transcription through damaged chromatin. The degree of DNA relaxation is affected by the mechanical properties and structure of th...
Article
Cellular actin arrays are often highly organized, with characteristic patterns critical to their in vivo functions, yet the mechanisms for establishing these higher order geometries remain poorly understood. In Saccharomyces cerevisiae, formin-polymerized actin cables are spatially organized and aligned along the mother-bud axis to facilitate polar...
Article
A bioinformatics analysis of the currently predicted GroEL-like proteins encoded by bacteriophage genomes was carried out in comparison with the phage double-ring EL and single-ring OBP chaperonins, previously described by us, as well as with the known chaperonins of group I and group II. A novel GroEL-like protein predicted in the genome of phage...
Preprint
Full-text available
One of the adaptive strategies for the constantly changing conditions of the environment utilized in bacterial cells involves the condensation of DNA in complex with the DNA-binding protein, Dps. With the use of electron microscopy and electron tomography, we observed several morphologically different types of DNA condensation in dormant Escherichi...
Article
Amphiphilic maleic acid-containing copolymers account for a recent methodical breakthrough in the study of membrane proteins. Their application enables a detergent-free extraction of membrane proteins from lipid bilayers, yielding stable water-soluble, discoidal lipid bilayer particles with incorporated proteins, which are wrapped with copolymers....
Article
Chaperonins are ubiquitously present protein complexes, which assist the proper folding of newly synthesized proteins and prevent aggregation of denatured proteins in an ATP-dependent manner. They are classified into group I (bacterial, mitochondrial, chloroplast chaperonins) and group II (archaeal and eukaryotic cytosolic variants). However, both...
Article
Full-text available
Cell migration is one of the most important processes in which the cytoskeleton plays a main role. The cytoskeleton network is formed by microtubules, actin filaments and intermediate filaments (IFs). While the structure and functions of the two former proteins have been extensively investigated during the last decades, vimentin IFs structure and t...
Article
The universal response of Escherichia coli to stress is enhancing the synthesis of specific histone-like Dps proteins that bind bacterial DNA. As a result, two-dimensional and three-dimensional crystalline arrays can be observed in the cytoplasm of starving bacteria. Conditions for obtaining in vitro co-crystals of DNA-Dps were selected, and their...
Article
SMA-based Extraction of the Yeast Cell Wall Integrity Sensor Mid2 from Native Membranes of Saccharomyces cerevisiae – Electron Microscopy Study - Volume 25 Supplement - Natalia Voskoboynikova, Maria Karlova, Rainer Kurre, Juergen Heinisch, Heinz-Juergen Steinhoff, Konstantin V. Shaitan, Olga S. Sokolova
Article
The Three-Dimensional Structure of (+39) RNA-Polymerase Elongation Complex Determined by Cryo-Electron Microscopy - Volume 25 Supplement - Oleg V. Chertkov, Maria G. Karlova, Vasily M. Studitsky, Olga S. Sokolova
Article
Electron Microscopy of Yeast FACT Protein Complex - Volume 25 Supplement - M.G. Karlova, M.E. Valieva, Ya. Klein, A.L. Kozlova, V.M. Studitsky, O.S. Sokolova
Article
ATP-bound Conformation of OBP Chaperonin - Volume 25 Supplement - T.B. Stanishneva-Konovalova, E.B. Pichkur, P.I. Semenyuk, L.P. Kurochkina, O.S. Sokolova
Article
Interconnection of Actin-binding Proteins and Septins in Asymmetric Cell Division - Volume 25 Supplement - AV Vakhrusheva, TB Stanishneva-Konovalova, OS Sokolova