Semiempirical quantum mechanical methods for noncovalent interactions for chemical and biochemical applications

AS Christensen, T Kubar, Q Cui, M Elstner - Chemical reviews, 2016 - ACS Publications
Semiempirical (SE) methods can be derived from either Hartree–Fock or density functional
theory by applying systematic approximations, leading to efficient computational schemes …

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 …

[HTML][HTML] Fantasy versus reality in fragment-based quantum chemistry

JM Herbert - The Journal of chemical physics, 2019 - pubs.aip.org
Since the introduction of the fragment molecular orbital method 20 years ago, fragment-
based approaches have occupied a small but growing niche in quantum chemistry. These …

Systematic evaluation of counterpoise correction in density functional theory

M Gray, PE Bowling, JM Herbert - Journal of Chemical Theory and …, 2022 - ACS Publications
A widespread belief persists that the Boys–Bernardi function counterpoise (CP) procedure
“overcorrects” supramolecular interaction energies for the effects of basis-set superposition …

Coupled Cluster Benchmarking of Large Noncovalent Complexes in L7 and S12L as Well as the C60 Dimer, DNA–Ellipticine, and HIV–Indinavir

C Villot, F Ballesteros, D Wang… - The Journal of Physical …, 2022 - ACS Publications
In this work, we report the benchmark binding energies of the seven complexes within the L7
data set, six host–guest complexes from the S12L data set, a C60 dimer, the DNA–ellipticine …

Accurate and efficient quantum chemistry calculations for noncovalent interactions in many-body systems: The XSAPT family of methods

KU Lao, JM Herbert - The Journal of Physical Chemistry A, 2015 - ACS Publications
We present an overview of “XSAPT”, a family of quantum chemistry methods for noncovalent
interactions. These methods combine an efficient, iterative, monomer-based approach to …

Protein–ligand interaction energies from quantum-chemical fragmentation methods: Upgrading the MFCC-scheme with many-body contributions

JR Vornweg, CR Jacob - The Journal of Physical Chemistry B, 2024 - ACS Publications
Quantum-chemical fragmentation methods offer an attractive approach for the accurate
calculation of protein–ligand interaction energies. While the molecular fractionation with …

Using quantum mechanical approaches to study biological systems

KM Merz Jr - Accounts of Chemical Research, 2014 - ACS Publications
Conspectus Quantum mechanics (QM) has revolutionized our understanding of the structure
and reactivity of small molecular systems. Given the tremendous impact of QM in this …

Recommending Hartree–Fock theory with London-dispersion and basis-set-superposition corrections for the optimization or quantum refinement of protein structures

L Goerigk, CA Collyer, JR Reimers - The Journal of Physical …, 2014 - ACS Publications
We demonstrate the importance of properly accounting for London dispersion and basis-set-
superposition error (BSSE) in quantum-chemical optimizations of protein structures, factors …

Investigating Paracetamol's Role as a Potential Treatment for Parkinson's Disease: Ab Initio Analysis of Dopamine, l-DOPA, Paracetamol, and NAPQI Interactions with …

J Harle, C Slater, M Cafiero - ACS omega, 2023 - ACS Publications
Recently, it was found that paracetamol can extend the therapeutic window of l-DOPA
treatment for Parkinson's disease [Golding (2019) BJPharm, 4 (2), Article 619]. It has been …