Surfactants: physicochemical interactions with biological macromolecules

M Aguirre-Ramírez, H Silva-Jiménez, IM Banat… - Biotechnology …, 2021 - Springer
Macromolecules are essential cellular components in biological systems responsible for
performing a large number of functions that are necessary for growth and perseverance of …

Complexation of single stranded RNA with an ionizable lipid: an all-atom molecular dynamics simulation study

AN Rissanou, A Ouranidis, K Karatasos - Soft Matter, 2020 - pubs.rsc.org
Complexation of a lipid-based ionizable cationic molecule (referred to as DML: see main
text) with RNA in an aqueous medium was examined in detail by means of fully atomistic …

Molecular dynamics of the membrane interaction and localisation of prodigiosin

A Ravindran, S Anishetty, G Pennathur - Journal of Molecular Graphics and …, 2020 - Elsevier
The tripyrrolic antibiotic prodigiosin causes diverse reactions on its targets like energy
spilling, membrane leakage, loss of motility and phototoxicity. It has bacteriostatic …

A6H polypeptide membranes: Molecular dynamics simulation, GIAO-DFT-NMR and TD-DFT spectroscopy analysis

D Andrade, G Colherinhas - Journal of Molecular Liquids, 2020 - Elsevier
Abstract In this work, Molecular Dynamics simulation (MD), GIAO-DFT-NMR, and TD-DFT
results are obtained to study structural, energetic, dynamics, and spectroscopy properties of …

Can CHARMM36 atomic charges described correctly the interaction between amino acid and water molecules by molecular dynamics simulations?

LBA Oliveira, G Colherinhas - Journal of Molecular Liquids, 2020 - Elsevier
Here we present calculations of electrical, energetic and magnetic properties of the amino
acids arginine, aspartic acid, glutamic acid, histidine and lysine in water solution. The …

Atomistic molecular dynamics study on the influence of high temperatures on the structure of peptide nanomembranes candidates for organic supercapacitor electrode

ED Alves, DX de Andrade, AR de Almeida… - Journal of Molecular …, 2021 - Elsevier
Recently, a series of organic structures formed by peptide self-assembly have been
reported, among which stand out the peptide nanomembranes with promising applications …

Assessing the DOPC-cholesterol interactions and their influence on fullerene C60 partitioning in lipid bilayers

ED Alves, G Colherinhas, SA Mendanha - Journal of Molecular Liquids, 2020 - Elsevier
We propose a computational Molecular Dynamic (MD) study to evaluate the interaction of C
60 fullerene in contact with lipid membranes, as a function of the bilayers cholesterol …

Update of CHARMM36's atomic charges for aromatic amino acids in water solution simulations and spectroscopy analysis via sequential molecular dynamics and DFT …

G Colherinhas - Journal of Molecular Liquids, 2021 - Elsevier
In this theoretical work we develop simulations of classical molecular dynamics sequentially
combined with quantum calculations to obtain an update of the atomic charges of the …

Hydroxylic, sulfur-containing and amidic amino acids in water solution: Atomic charges parameters for computational modeling using molecular dynamics simulation …

LBA Oliveira, WB Cardoso, G Colherinhas - Journal of Molecular Liquids, 2021 - Elsevier
In the present paper, we investigated the polarization effects on different amino acids (AAs)
structures, ie, Serine, Threonine, Cysteine, Methionine, Asparagine, and Glutamine. Initially …

The influence of polar and non-polar interactions on the self-assembly of peptide nanomembranes and their applications: An atomistic study using classical molecular …

D Andrade, G Colherinhas - Journal of Molecular Liquids, 2020 - Elsevier
In this work, structural and energetic properties of five peptide membranes are investigated
via fully atomistic molecular dynamics simulations. The membranes are made up of peptides …