[HTML][HTML] Recent developments and applications of the MMPBSA method

C Wang, DA Greene, L Xiao, R Qi… - Frontiers in molecular …, 2018 - frontiersin.org
The Molecular Mechanics Poisson-Boltzmann Surface Area (MMPBSA) approach has been
widely applied as an efficient and reliable free energy simulation method to model molecular …

Protein nanotubes as state-of-the-art nanocarriers: Synthesis methods, simulation and applications

I Katouzian, SM Jafari - Journal of Controlled Release, 2019 - Elsevier
Application of food proteins as a tool to form nanostructures (especially nanotubular shapes)
has been an interesting topic for both the food and pharmaceutical sectors. Organic and …

Theoretical design of functionalized gold nanoparticles as antiviral agents against severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)

A Mehranfar, M Izadyar - The journal of physical chemistry letters, 2020 - ACS Publications
In this research, through the use of molecular dynamics (MD) simulations, the ability of gold
nanoparticles (AuNPs) functionalized by different groups, such as 3-mercaptoethylsulfonate …

A molecular dynamic study on the ability of phosphorene for designing new sensor for SARS-CoV-2 detection

A Mehranfar, M Khavani, M Izadyar - Journal of Molecular Liquids, 2022 - Elsevier
Due to the dramatic increase in the number of patients with severe acute respiratory
syndrome coronavirus 2 (SARS-CoV-2), designing new selective and sensitive sensors for …

[HTML][HTML] Nanotechnology-based approaches for targeting and delivery of drugs via Hexakis (m-PE) macrocycles

S Pasban, H Raissi - Scientific reports, 2021 - nature.com
Abstract Hexakis (m-phenylene ethynylene)(m-PE) macrocycles, with aromatic backbones
and multiple hydrogen-bonding side chains, had a very high propensity to self-assemble via …

New insights into Hexakis macrocycles as a novel nano-carrier for highly potent anti-cancer treatment: A new challenge in drug delivery

S Pasban, H Raissi - Colloids and Surfaces B: Biointerfaces, 2021 - Elsevier
The purpose of this study is to design and evaluate a new tubular assembly structure of
Hexakis (m-phenylene ethynylene)(m-PE) macrocycles and to explore its potential …

On the Sensitivity and Affinity of Gold, Silver, and Platinum Surfaces against the SARS-CoV-2 Virus: A Comparative Computational Study

M Khavani, A Mehranfar… - Journal of Chemical …, 2023 - ACS Publications
The novel coronavirus disease and its complications have motivated the design of new
sensors with the highest sensitivity, and affinity for the detection of the SARS-CoV-2 virus is …

Interaction of epoxy-based hydrogels and water: A molecular dynamics simulation study

JK Roy, HP Pinto, J Leszczynski - Journal of Molecular Graphics and …, 2021 - Elsevier
Biomaterials play a crucial role in tissue engineering as a functional replacement,
regenerative medicines, supportive scaffold for guided tissue growth, and drug delivery …

Theoretical design and experimental study of new aptamers with the improved target-affinity: New insights into the Pb2+-specific aptamers as a case study

Z Khoshbin, MR Housaindokht, M Izadyar… - Journal of Molecular …, 2019 - Elsevier
This study introduces a screening method to design the new aptamers (mutants) with an
improved target specificity by using a joint of theoretical and experimental study. The …

The investigation of the G-quadruplex aptamer selectivity to Pb2+ ion: a joint molecular dynamics simulation and density functional theory study

Z Khoshbin, MR Housaindokht, M Izadyar… - Journal of …, 2020 - Taylor & Francis
The aptamers with the ability to form a G-quadruplex structure can be stable in the presence
of some ions. Hence, study of the interactions between such aptamers and ions can be …