Sensitivity to vaccines, therapeutic antibodies, and viral entry inhibitors and advances to counter the SARS-CoV-2 Omicron variant

H Zhou, M Møhlenberg, JC Thakor… - Clinical microbiology …, 2022 - Am Soc Microbiol
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) keeps evolving and
mutating into newer variants over time, which gain higher transmissibility, disease severity …

Evolution of the SARS-CoV-2 Omicron spike

RJ Parsons, P Acharya - Cell reports, 2023 - cell.com
The severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) Omicron variant of
concern, first identified in November 2021, rapidly spread worldwide and diversified into …

CHARMM-GUI Membrane Builder: Past, Current, and Future Developments and Applications

S Feng, S Park, YK Choi, W Im - Journal of chemical theory and …, 2023 - ACS Publications
Molecular dynamics simulations of membranes and membrane proteins serve as
computational microscopes, revealing coordinated events at the membrane interface. As G …

SARS-CoV-2 evolved variants optimize binding to cellular glycocalyx

SH Kim, FL Kearns, MA Rosenfeld, L Votapka… - Cell Reports Physical …, 2023 - cell.com
Viral variants of concern continue to arise for SARS-CoV-2, potentially impacting both
methods for detection and mechanisms of action. Here, we investigate the effect of an …

Timeline of changes in spike conformational dynamics in emergent SARS-CoV-2 variants reveal progressive stabilization of trimer stalk with altered NTD dynamics

SM Braet, TSC Buckley, V Venkatakrishnan, KMA Dam… - Elife, 2023 - elifesciences.org
SARS-CoV-2 emergent variants are characterized by increased viral fitness and each shows
multiple mutations predominantly localized to the spike (S) protein. Here, amide …

SARS-CoV-2 omicron variant binds to human cells more strongly than the wild type: evidence from molecular dynamics simulation

HL Nguyen, NQ Thai, PH Nguyen… - The Journal of Physical …, 2022 - ACS Publications
The emergence of the variant of concern Omicron (B. 1.1. 529) of the severe acute
respiratory syndrome coronavirus 2 has aggravated the Covid-19 pandemic due to its very …

Changes in symptoms experienced by SARS-Cov-2-infected individuals–from the first wave to the Omicron variant

H Schulze, W Bayer - Frontiers in Virology, 2022 - frontiersin.org
The severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has caused a global
pandemic and public health crisis since the beginning of 2020. First recognized for the …

When the dust has settled: calculation of binding affinities from first principles for SARS-CoV-2 variants with quantitative accuracy

EG Coderc de Lacam, M Blazhynska… - Journal of Chemical …, 2022 - ACS Publications
Accurate determination of binding free energy is pivotal for the study of many biological
processes and has been applied in a number of theoretical investigations to compare the …

Surface charge changes in spike RBD mutations of SARS-CoV-2 and its variant strains alter the virus evasiveness via HSPGs: A review and mechanistic hypothesis

Z Zhang, J Zhang, J Wang - Frontiers in Public Health, 2022 - frontiersin.org
With the COVID-19 pandemic continuing, more contagious SARS-CoV-2 variants, including
Omicron, have been emerging. The mutations, especially those that occurred on the spike …

A study on the effect of natural products against the transmission of B. 1.1. 529 Omicron

SS Alkafaas, AM Abdallah, AM Hussien, H Bedair… - Virology Journal, 2023 - Springer
Background The recent outbreak of the Coronavirus pandemic resulted in a successful
vaccination program launched by the World Health Organization. However, a large …