AB‐bind: antibody binding mutational database for computational affinity predictions

S Sirin, JR Apgar, EM Bennett, AE Keating - Protein Science, 2016 - Wiley Online Library
Antibodies (Abs) are a crucial component of the immune system and are often used as
diagnostic and therapeutic agents. The need for high‐affinity and high‐specificity antibodies …

A GROMOS-compatible force field for small organic molecules in the condensed phase: The 2016H66 parameter set

BAC Horta, PT Merz, PFJ Fuchs, J Dolenc… - Journal of chemical …, 2016 - ACS Publications
This article reports on the calibration and validation of a new GROMOS-compatible
parameter set 2016H66 for small organic molecules in the condensed phase. The …

Perspective: Alchemical free energy calculations for drug discovery

DL Mobley, PV Klimovich - The Journal of chemical physics, 2012 - pubs.aip.org
Computational techniques see widespread use in pharmaceutical drug discovery, but
typically prove unreliable in predicting trends in protein-ligand binding. Alchemical free …

Molecular recognition and ligand association

R Baron, JA McCammon - Annual review of physical chemistry, 2013 - annualreviews.org
We review recent developments in our understanding of molecular recognition and ligand
association, focusing on two major viewpoints:(a) studies that highlight new physical insight …

A general guidebook for the theoretical prediction of physicochemical properties of chemicals for regulatory purposes

C Nieto-Draghi, G Fayet, B Creton, X Rozanska… - Chemical …, 2015 - ACS Publications
The REACH regulation (recent EU regulation for “Registration, Evaluation, Authorization,
and Restriction of Chemicals”) entered its product-recording phase after December 2008. 1 …

[HTML][HTML] The new microtubule-targeting agent SIX2G induces immunogenic cell death in multiple myeloma

K Grillone, C Riillo, R Rocca, S Ascrizzi… - International Journal of …, 2022 - mdpi.com
Microtubule-targeting agents (MTAs) are effective drugs for cancer treatment. A novel diaryl
[1, 2] oxazole class of compounds binding the colchicine site was synthesized as cis …

Biomolecular force field parameterization via atoms-in-molecule electron density partitioning

DJ Cole, JZ Vilseck, J Tirado-Rives… - Journal of chemical …, 2016 - ACS Publications
Molecular mechanics force fields, which are commonly used in biomolecular modeling and
computer-aided drug design, typically treat nonbonded interactions using a limited library of …

Design and preclinical characterization program toward asundexian (BAY 2433334), an oral factor XIa inhibitor for the prevention and treatment of thromboembolic …

S Roehrig, J Ackerstaff, E Jiménez Núñez… - Journal of medicinal …, 2023 - ACS Publications
Activated coagulation factor XI (FXIa) is a highly attractive antithrombotic target as it
contributes to the development and progression of thrombosis but is thought to play only a …

Comparisons of different force fields in conformational analysis and searching of organic molecules: A review

T Lewis-Atwell, PA Townsend, MN Grayson - Tetrahedron, 2021 - Elsevier
This review aims to examine literature where different force fields are compared by their
performances in conformational analysis and searching of organic molecules …

[HTML][HTML] Comparative immunogenicity of the recombinant receptor-binding domain of protein S SARS-CoV-2 obtained in prokaryotic and mammalian expression …

IA Merkuleva, DN Shcherbakov, MB Borgoyakova… - Vaccines, 2022 - mdpi.com
The receptor-binding domain (RBD) of the protein S SARS-CoV-2 is considered to be one of
the appealing targets for developing a vaccine against COVID-19. The choice of an …