Virtual Screening of Human Serum Albumin Mutants to Optimize the Search for its Forms that Increase Affinity to Amyloid-Β Peptide

A promising approach to the treatment of Alzheimer's disease (AD) is the removal of amyloid-β peptide (Aβ) from the patient's central nervous system by acting on human serum albumin (HSA). HSA carries 90% of Aβ in blood serum and 40-90% of Aβ in the cerebrospinal fluid (CNS). In this work, virtual screening of all possible mutant forms of HSA based on the data of the I-Mutant service made it possible to predict changes in HSA stability and identify the most “sensitive” regions of its polypeptide chain to substitutions. The data obtained will be used to optimize the search for HSA forms with increased affinity to Aβ, as well as to study the mechanisms underlying the modulating effects of HSA ligands on its interaction with Aβ, which can become the basis for the development of new approaches to therapy and prevention of AD.

Electroactive Biofilms of Activated Sludge Microorganisms on a Nanostructured Surface as the Basis for a Highly Sensitive Biochemical Oxygen Demand Biosensor

The possibility of the developing a biochemical oxygen demand (BOD) biosensor based on electroactive biofilms of activated sludge grown on the surface of a graphite-paste electrode modified with carbon nanotubes was studied. A complex of microscopic methods controlled biofilm formation: optical microscopy with phase contrast, scanning electron microscopy, and laser confocal microscopy. The features of charge transfer in the obtained electroactive biofilms were studied using the methods of cyclic voltammetry and electrochemical impedance spectroscopy. The rate constant of the interaction of microorganisms with the extracellular electron carrier (0.79 ± 0.03 dm³(g s)^-1) and the heterogeneous rate constant of electron transfer (0.34 ± 0.02 cm s^-1) were determined using the cyclic voltammetry method. These results revealed that the modification of the carbon nanotubes' (CNT) electrode surface makes it possible to create electroactive biofilms. An analysis of the metrological and analytical characteristics of the created biosensors showed that the lower limit of the biosensor based on an electroactive biofilm of activated sludge is 0.41 mgO₂/dm³, which makes it possible to analyze almost any water sample. Analysis of 12 surface water samples showed a high correlation (R² = 0.99) with the results of the standard method for determining biochemical oxygen demand.

Sequence and evolutionary analysis of bacterial ribosomal S1 proteins

The multi-domain bacterial S1 protein is the largest and most functionally important ribosomal protein of the 30S subunit, which interacts with both mRNA and proteins. The family of ribosomal S1 proteins differs in the classical sense from a protein with tandem repeats and has a "bead-on-string" organization, where each repeat is folded into a globular domain. Based on our recent data, the study of evolutionary relationships for the bacterial phyla will provide evidence for one of the proposed theories of the evolutionary development of proteins with structural repeats: from multiple repeats of assembles to single repeats, or vice versa. In this comparative analysis of 1333 S1 sequences that were identified in 24 different phyla, we demonstrate how such phyla can form independently/dependently during evolution. To the best of our knowledge, this work is the first study of the evolutionary history of bacterial ribosomal S1 proteins. The collected and structured data can be useful to computer biologists as a resource for determining percent identity, amino acid composition and logo motifs, as well as dN/dS ratio in bacterial S1 protein. The obtained research data indicate that the evolutionary development of bacterial ribosomal S1 proteins evolved from multiple assemblies to single repeat. The presented data are integrated into the server, which can be accessed at http://oka.protres.ru:4200.

Repeats in S1 Proteins: Flexibility and Tendency for Intrinsic Disorder

An important feature of ribosomal S1 proteins is multiple copies of structural domains in bacteria, the number of which changes in a strictly limited range from one to six. For S1 proteins, little is known about the contribution of flexible regions to protein domain function. We exhaustively studied a tendency for intrinsic disorder and flexibility within and between structural domains for all available UniProt S1 sequences. Using charge–hydrophobicity plot cumulative distribution function (CH-CDF) analysis we classified 53% of S1 proteins as ordered proteins; the remaining proteins were related to molten globule state. S1 proteins are characterized by an equal ratio of regions connecting the secondary structure within and between structural domains, which indicates a similar organization of separate S1 domains and multi-domain S1 proteins. According to the FoldUnfold and IsUnstruct programs, in the multi-domain proteins, relatively short flexible or disordered regions are predominant. The lowest percentage of flexibility is in the central parts of multi-domain proteins. Our results suggest that the ratio of flexibility in the separate domains is related to their roles in the activity and functionality of S1: a more stable and compact central part in the multi-domain proteins is vital for RNA interaction, terminals domains are important for other functions.

Bioelectrochemical Properties of Enzyme-Containing Multilayer Polyelectrolyte Microcapsules Modified with Multiwalled Carbon Nanotubes

This work investigated changes in the biochemical parameters of multilayer membrane structures, emerging at their modification with multiwalled carbon nanotubes (MWCNTs). The structures were represented by polyelectrolyte microcapsules (PMCs) containing glucose oxidase (GOx). PMCs were made using sodium polystyrene sulfonate (polyanion) and poly(allylamine hydrochloride) (polycation). Three compositions were considered: with MWCNTs incorporated between polyelectrolyte layers; with MWCNTs inserted into the hollow of the microcapsule; and with MWCNTs incorporated simultaneously into the hollow and between polyelectrolyte layers. The impedance spectra showed modifications using MWCNTs to cause a significant decrease in the PMC active resistance from 2560 to 25 kOhm. The cyclic current-voltage curves featured a current rise at modifications of multilayer MWCNT structures. A PMC-based composition was the basis of a receptor element of an amperometric biosensor. The sensitivity of glucose detection by the biosensor was 0.30 and 0.05 μA/mM for PMCs/MWCNTs/GOx and PMCs/GOx compositions, respectively. The biosensor was insensitive to the presence of ethanol or citric acid in the sample. Polyelectrolyte microcapsules based on a multilayer membrane incorporating the enzyme and MWCNTs can be efficient in developing biosensors and microbial fuel cells.