Ligand-binding affinity estimates supported by quantum-mechanical methods

U Ryde, P Soderhjelm - Chemical Reviews, 2016 - ACS Publications
One of the largest challenges of computational chemistry is calculation of accurate free
energies for the binding of a small molecule to a biological macromolecule, which has …

Advances in docking

VB Sulimov, DC Kutov… - Current medicinal …, 2019 - ingentaconnect.com
Background: Design of small molecules which are able to bind to the protein responsible for
a disease is the key step of the entire process of the new medicine discovery. Atomistic …

Quantum mechanical calculation of noncovalent interactions: a large-scale evaluation of PMx, DFT, and SAPT approaches

A Li, HS Muddana, MK Gilson - Journal of chemical theory and …, 2014 - ACS Publications
Quantum mechanical (QM) calculations of noncovalent interactions are uniquely useful as
tools to test and improve molecular mechanics force fields and to model the forces involved …

Enhancing the hydrolytic activity of a lipase towards larger triglycerides through lid domain engineering

L Fernandez-Lopez, S Roda, A Robles-Martín… - International Journal of …, 2023 - mdpi.com
Lipases have valuable potential for industrial use, particularly those mostly active against
water-insoluble substrates, such as triglycerides composed of long-carbon chain fatty acids …

Fragment-based quantum mechanical approach to biomolecules, molecular clusters, molecular crystals and liquids

J Liu, X He - Physical Chemistry Chemical Physics, 2020 - pubs.rsc.org
To study large molecular systems beyond the system size that the current state-of-the-art ab
initio electronic structure methods could handle, fragment-based quantum mechanical (QM) …

Quantum mechanics implementation in drug-design workflows: does it really help?

OA Arodola, MES Soliman - Drug design, development and …, 2017 - Taylor & Francis
The pharmaceutical industry is progressively operating in an era where development costs
are constantly under pressure, higher percentages of drugs are demanded, and the drug …

Towards the quantum-enabled technologies for development of drugs or delivery systems

P Hassanzadeh - Journal of Controlled Release, 2020 - Elsevier
Enormous advances in technology and science have provided outstanding innovations
including the development of quantum computers (QCs) capable of performing various tasks …

Novel type of virtual ligand screening on the basis of quantum-chemical calculations for protein–ligand complexes and extended clustering techniques

R Kurauchi, C Watanabe, K Fukuzawa… - … and Theoretical Chemistry, 2015 - Elsevier
We propose a novel method for virtual ligand screening to explore drug candidates binding
to target proteins. Employing both information on the ligand-residue interactions calculated …

Applications of the fragment molecular orbital method to drug research

MP Mazanetz, E Chudyk, DG Fedorov… - Computer-Aided Drug …, 2016 - Springer
The study of molecular behavior at high levels of theoretical accuracy has entered into a
new age in computational drug discovery where quantum mechanical (QM) methods are …

Improving protein-ligand docking results using the Semiempirical quantum mechanics: testing on the PDBbind 2016 core set

Z Mohebbinia, R Firouzi… - Journal of Biomolecular …, 2023 - Taylor & Francis
Molecular docking techniques are routinely employed for predicting ligand binding
conformations and affinities in the in silico phase of the drug design and development …