Compatibility of the conformationally rigid CF3-Bpg side chain with the hydrophobic coiled-coil interface

3-(Trifluoromethyl)bicyclopent-[1.1.1]-1-yl glycine (CF₃-Bpg) has previously been established as a useful ¹⁹F NMR label to analyse the structures of oligomeric membrane-active peptides or transmembrane segments. To systematically examine the effect of side chain volume, conformational rigidity, and hydrophobicity of CF₃-Bpg in polypeptide environments the amino acid was incorporated into an established coiled-coil based screening system. A single substitution of either valine (position a16) or leucine (position d19) within the hydrophobic core of the heteromeric coiled coil has practically no effect on its structure. Despite its comparatively high hydrophobicity, however, the stiff and bulky side chain of CF₃-Bpg is not so well accommodated by the hydrophobic core as it leads to a more pronounced destabilization than observed for other, more polar fluorinated amino acids which carry more flexible side chains. CF₃-Bpg is therefore a useful ¹⁹F NMR label, though not for monitoring the stability of such helix–helix interactions.     

Comparative molecular docking and simulation analysis of molnupiravir and remdesivir with SARS-CoV-2 RNA dependent RNA polymerase (RdRp)

Treatment of SARS-CoV-2 targeting its RNA dependent RNA polymerase (RdRp) is of current interest. Remdesivir has been approved for the treatment of COVID-19 around the world. However, the drug has been linked with pharmacological limitations like adverse effects and reduced efficiency. Nevertheless, recent advancements have depicted molnupiravir as an effective therapeutic agent to target the SARS-CoV-2 RdRp. The drug has cleared both in vitro and in vivo screening. It is in phase-III clinical trial. Nonetheless, there are no data on themolecular binding interaction of molnupiravir with RdRp. Therefore, it is of interest to report the binding interaction of molnupiravir using molecular docking. It is also of interest to show its stability during interaction using molecular dynamics and binding free energy calculations along with drug likeliness and pharmacokinetic properties in comparison with remdesivir.     

Computer modeling of ESR spectra of the plasma in patients with Down's syndrome

ESR technique at 77 degrees K was used for studying the blood plasma ESR signals of patients with Down syndrome and of healthy people. It was observed that the first exhibited a tendency towards a decrease of ESR signal with g = 4.3 and increase of the ratio of ceruplasmin (g = 2.05) and transferrin (g = 4.3) ESR signal amplitude. A computer simulation has been carried out by means of special mathematical program of experimental ESR spectra of the blood plasma.     

Interaction of spin-labelled phosphatidyl choline with Ca-dependent ATPase from sarcoplasmic reticulum

The interaction between 3-acyl-2-(6-doxylpalmitoyl) phosphatidyl choline used as a hydrophobic spin probe and Ca2+-dependent ATPase from sarcoplasmic reticulum membranes of rabbit and carp white skeletal muscles was studied. The spin label incorporation into ATPase preparations was performed at initial steps of ATPase isolation by incubating reticulum membranes with the spin probe in the presence of cholic acid. A comparison of the molecular mobility of the probe incorporated into ATPase preparations and into liposomes formed from ATPase phospholipids demonstrated that the presence of the protein in the membrane produces the same effect on the probe mobility as does the decrease of temperature by 10-15 degrees C. The molecular mobility of the probe in the ATPase preparation is increased during protein thermal denaturation. The breaks on the Arrhenius plots for the probe molecular mobility are revealed at the same temperatures (25 degrees for rabbit reticulum and 16 degrees for carp reticulum) as those for the ATPase activity.     

The electronic structure properties of 20 L-amino acids in neutral and zwitterion forms: Quantum-chemical calculations

The conformational diversity of the 20 DNA-encoded proteinogenic amino acids and their zwitterions in the gaseous state and in the state with the first hydration shell was analyzed using the PM3 and PM7 semi-empirical quantum-chemistry programs.     

Specialized radiation-induced heritable nonstochastic damage at the cellular level of the organization

In addition to widely known stochastic mutation effects, radiation also induces qualitatively different threshold (nonstochastic) changes that influence the genome but are not conditioned by mutations. The main characteristics of these changes are: spasmodic occurrence in virtually 100% of cells; independence of radiation dose (with regard to the degree of manifestation); low inducing doses; absence of repair throughout the indefinitely large number of cell generations; nonspecificity to mutagen agents, etc. The occurrence of the above changes among objects of different organization is demonstrated and the necessity of taking them into account in estimating a radiation danger is indicated.     

Acid-base properties of gramicidin C

The acid and basic properties of gramicidin S, a polypeptide antibiotic were studied. Calculation of the protonization constants with the Schwarzenbach method showed that the capacity of the antibiotic amino groups for protonization depended on both the solvent nature and the gramicidin S concentration. No such phenomena were observed in the study on the acid and basic properties of N,N -dimethyldiaminogramicidin. This confirmed the possible effect of the association of the gramicidin S molecules on the protolytic properties of the antibiotic.     

In vivo detection of nitric oxide distribution in mice

This paper discusses in vivo detection of nitric oxide (NO) distribution in endotoxin-treated mice using L-band (1.1 GHz) electron paramagnetic resonance spectroscopy (EPR) in combination with the hydrophilic NO trapping complex: N-methyl-D-glucamine dithiocarbamate and iron (MGD-Fe). MGD-Fe-NO complex is found in the upper abdomen (liver region), lower abdomen (kidney and urinary bladder) and head region of ICR mice. Experiments with nitric oxide synthase (NOS) inhibition and ¹⁵N-labeled L-arginine as NOS substrate verify the origin of trapped NO from L-arginine. However, contribution from a 'nonenzymatic' NO generation pathway can not be ruled out. This paper further examines potential artifacts, which may arise in experiments using dithiocarbamate-iron complexes as NO trapping agents.