Accurate composite and fragment-based quantum chemical models for large molecules

K Raghavachari, A Saha - Chemical reviews, 2015‏ - ACS Publications
The last three decades have seen dramatic progress in the development and application of
ab initio quantum chemical methods. The binding energies and thermodynamic properties of …

The fragment molecular orbital method: theoretical development, implementation in GAMESS, and applications

DG Fedorov - Wiley Interdisciplinary Reviews: Computational …, 2017‏ - Wiley Online Library
The physical picture of the fragment molecular orbital (FMO) method is described on the
basis of a many‐body expansion with terms describing the polarization of isolated …

The translation inhibitor rocaglamide targets a bimolecular cavity between eIF4A and polypurine RNA

S Iwasaki, W Iwasaki, M Takahashi, A Sakamoto… - Molecular cell, 2019‏ - cell.com
A class of translation inhibitors, exemplified by the natural product rocaglamide A (RocA),
isolated from Aglaia genus plants, exhibits antitumor activity by clam** eukaryotic …

Fragment molecular orbital based interaction analyses on COVID-19 main protease− inhibitor N3 complex (PDB ID: 6LU7)

R Hatada, K Okuwaki, Y Mochizuki… - Journal of chemical …, 2020‏ - ACS Publications
The worldwide spread of COVID-19 (new coronavirus found in 2019) is an emergent issue
to be tackled. In fact, a great amount of works in various fields have been made in a rather …

Prediction of binding pose and affinity of Nelfinavir, a SARS-CoV-2 main protease repositioned drug, by combining docking, molecular dynamics, and fragment …

Y Handa, K Okuwaki, Y Kawashima… - The Journal of …, 2024‏ - ACS Publications
A novel in silico drug design procedure is described targeting the Main protease (Mpro) of
the SARS-CoV-2 virus. The procedure combines molecular docking, molecular dynamics …

Fragment molecular orbital-based variational quantum eigensolver for quantum chemistry in the age of quantum computing

H Lim, DH Kang, J Kim, A Pellow-Jarman… - Scientific reports, 2024‏ - nature.com
Quantum computers offer significant potential for complex system analysis, yet their
application in large systems is hindered by limitations such as qubit availability and quantum …

Molecular modeling, FTIR spectral characterization and mechanical properties of carbonated-hydroxyapatite prepared by mechanochemical synthesis

RA Youness, MA Taha, H Elhaes, M Ibrahim - Materials Chemistry and …, 2017‏ - Elsevier
Nanocrystalline B-type carbonate substituted hydroxyapatite (B-CHA) powder has been
successively synthesized by mechanochemical method. The effect of milling times on the …

Surface hop** modeling of charge and energy transfer in active environments

JM Toldo, MT Do Casal, E Ventura… - Physical Chemistry …, 2023‏ - pubs.rsc.org
An active environment is any atomic or molecular system changing a chromophore's
nonadiabatic dynamics compared to the isolated molecule. The action of the environment on …

Application of quantum computing to biochemical systems: a look to the future

HP Cheng, E Deumens, JK Freericks, C Li… - Frontiers in …, 2020‏ - frontiersin.org
Chemistry is considered as one of the more promising applications to science of near-term
quantum computing. Recent work in transitioning classical algorithms to a quantum …

DMDA-PatA mediates RNA sequence-selective translation repression by anchoring eIF4A and DDX3 to GNG motifs

H Saito, Y Handa, M Chen… - Nature …, 2024‏ - nature.com
Small-molecule compounds that elicit mRNA-selective translation repression have attracted
interest due to their potential for expansion of druggable space. However, only a limited …