Fragmentation methods: A route to accurate calculations on large systems

MS Gordon, DG Fedorov, SR Pruitt… - Chemical …, 2012 - ACS Publications
Theoretical chemists have always strived to perform quantum mechanics (QM) calculations
on larger and larger molecules and molecular systems, as well as condensed phase …

Large-scale computations in chemistry: a bird's eye view of a vibrant field

AV Akimov, OV Prezhdo - Chemical reviews, 2015 - ACS Publications
1.1. The Meaning of “Large Scale” In general, the term “large scale” can have one of the
following five meanings in computational chemistry:(1) large size: power-law and …

Electrostatically embedded generalized molecular fractionation with conjugate caps method for full quantum mechanical calculation of protein energy

X Wang, J Liu, JZH Zhang, X He - The Journal of Physical …, 2013 - ACS Publications
An electrostatically embedded generalized molecular fractionation with conjugate caps (EE-
GMFCC) method is developed for efficient linear-scaling quantum mechanical (QM) …

Divide and conquer Hartree− Fock calculations on proteins

X He, KM Merz Jr - Journal of chemical theory and computation, 2010 - ACS Publications
The ability to perform ab initio electronic structure calculations that scale linearly with the
system size is one of the central aims in theoretical chemistry. In this study, the …

Fragment quantum chemical approach to geometry optimization and vibrational spectrum calculation of proteins

J Liu, JZH Zhang, X He - Physical Chemistry Chemical Physics, 2016 - pubs.rsc.org
Geometry optimization and vibrational spectra (infrared and Raman spectra) calculations of
proteins are carried out by a quantum chemical approach using the EE-GMFCC …

An elongation method for large systems toward bio-systems

Y Aoki, FL Gu - Physical Chemistry Chemical Physics, 2012 - pubs.rsc.org
The elongation method, proposed in the early 1990s, originally for theoretical synthesis of
aperiodic polymers, has been reviewed. The details of derivation of the localization scheme …

Elongation Method‐Based Alternating Multi‐Directional Automated Property Optimization Process and Its Application

S Lin, Y Orimoto, Y Aoki - Journal of Computational Chemistry, 2025 - Wiley Online Library
Elongation (ELG) method‐based property optimization (POPT) is an effective approach for
designing large systems from one terminal to the other. An alternating multi‐directional ELG …

Fast orbital localization scheme in molecular fragments resolution

P de Silva, M Giebułtowski… - Physical Chemistry …, 2012 - pubs.rsc.org
The method for localizing orbitals on a set of predefined molecular fragments is introduced.
Regional localized molecular orbitals (RLMO) are obtained through block diagonalization of …

Elongation cutoff technique at Kohn–Sham level of theory

J Korchowiec, P De Silva, M Makowski… - … Journal of Quantum …, 2010 - Wiley Online Library
The elongation cutoff technique ELG/C belongs to fragmentation methods. It uses the
concept of locality and takes into account the sparsity of Kohn–Sham (KS) matrix in …

A third-generation density-functional-theory-based method for calculating canonical molecular orbitals of large molecules

T Hirano, F Sato - Physical Chemistry Chemical Physics, 2014 - pubs.rsc.org
We used grid-free modified Cholesky decomposition (CD) to develop a density-functional-
theory (DFT)-based method for calculating the canonical molecular orbitals (CMOs) of large …