Combining fragmentation method and high-performance computing: Geometry optimization and vibrational spectra of proteins.

Exploring the structures and spectral features of proteins with advanced quantum chemical methods is an uphill task. In this work, a fragment-based molecular tailoring approach (MTA) is appraised for the CAM-B3LYP/aug-cc-pVDZ-level geometry optimization and vibrational infrared (IR) spectra calculation of ten real proteins containing up to 407 atoms and 6617 basis functions. The use of MTA and the inherently parallel nature of the fragment calculations enables a rapid and accurate calculation of the IR spectrum.

Quasi-relativistic approach to analytical gradients of parity violating potentials.

An analytic gradient approach for the computation of derivatives of parity-violating (PV) potentials with respect to displacements of the nuclei in chiral molecules is described and implemented within a quasirelativistic mean-field framework. Calculated PV potential gradients are utilized for estimating PV frequency splittings between enantiomers in rotational and vibrational spectra of four chiral polyhalomethanes, i.e.

Instanton calculations of tunneling splittings in chiral molecules.

We report the ground state tunneling splittings (ΔE ) of a number of axially chiral molecules using the ring-polymer instanton (RPI) method (J. Chem. Phys.

Toward an Accurate and Inexpensive Estimation of CCSD(T)/CBS Binding Energies of Large Water Clusters.

Owing to the steep scaling behavior, highly accurate CCSD(T) calculations, the contemporary gold standard of quantum chemistry, are prohibitively difficult for moderate- and large-sized water clusters even with the high-end hardware. The molecular tailoring approach (MTA), a fragmentation-based technique is found to be useful for enabling such high-level ab initio calculations. The present work reports the CCSD(T) level binding energies of many low-lying isomers of large (H2O)n (n = 16, 17, and 25) clusters employing aug-cc-pVDZ and aug-cc-pVTZ basis sets within the MTA framework.

Vibrational infrared and Raman spectra of polypeptides: Fragments-in-fragments within molecular tailoring approach.

The present work reports the calculation of vibrational infrared (IR) and Raman spectra of large molecular systems employing molecular tailoring approach (MTA). Further, it extends the grafting procedure for the accurate evaluation of IR and Raman spectra of large molecular systems, employing a new methodology termed as Fragments-in-Fragments (FIF), within MTA. Unlike the previous MTA-based studies, the accurate estimation of the requisite molecular properties is achieved without performing any full calculations (FC).

Accurate vibrational spectra via molecular tailoring approach: a case study of water clusters at MP2 level.

In spite of the recent advents in parallel algorithms and computer hardware, high-level calculation of vibrational spectra of large molecules is still an uphill task. To overcome this, significant effort has been devoted to the development of new algorithms based on fragmentation methods. The present work provides the details of an efficient and accurate procedure for computing the vibrational spectra of large clusters employing molecular tailoring approach (MTA).

Low energy isomers of (H2O)25 from a hierarchical method based on Monte Carlo temperature basin paving and molecular tailoring approaches benchmarked by MP2 calculations.

We report new global minimum candidate structures for the (H2O)25 cluster that are lower in energy than the ones reported previously and correspond to hydrogen bonded networks with 42 hydrogen bonds and an interior, fully coordinated water molecule. These were obtained as a result of a hierarchical approach based on initial Monte Carlo Temperature Basin Paving sampling of the cluster's Potential Energy Surface with the Effective Fragment Potential, subsequent geometry optimization using the Molecular Tailoring Approach with the fragments treated at the second order Møller-Plesset (MP2) perturbation (MTA-MP2) and final refinement of the entire cluster at the MP2 level of theory. The MTA-MP2 optimized cluster geometries, constructed from the fragments, were found to be within <0.

Molecular tailoring approach: a route for ab initio treatment of large clusters.

Conspectus Chemistry on the scale of molecular clusters may be dramatically different from that in the macroscopic bulk. Greater understanding of chemistry in this size regime could greatly influence fields such as materials science and atmospheric and environmental chemistry. Recent advances in experimental techniques and computational resources have led to accurate investigations of the energies and spectral properties of weakly bonded molecular clusters.

Exploring structures and energetics of large OCS clusters by correlated methods.

An extensive minima search based on accurate estimation of binding energies in (OCS)n clusters for n = 2-5 is carried out employing MP2 and CCSD(T) levels of theory. Features of the molecular electrostatic potential of the OCS monomer are utilized for building the laterally shifted and linear aggregates of OCS. Trial structures generated through cluster building algorithm are subjected to geometry optimization at MP2 level using aug-cc-pvTZ (TZ) basis set.

High-level ab initio investigations on structures and energetics of N2O clusters.

Both experimental and theoretical investigations on weakly bonded small N2O clusters have been a subject of interest for the past decade. The current article presents high-level ab initio calculations for (N2O)n clusters for n = 4-6 employing second-order Møller-Plesset (MP2) theory and coupled cluster singles and doubles with perturbative triple (CCSD(T)) theory using Dunning's correlation-consistent basis sets. The electrostatics-guided cluster building code developed in our laboratory is applied for the generation of initial cluster geometries, followed by geometry optimization at MP2/aug-cc-pVTZ level of theory.

Appraisal of molecular tailoring approach for large clusters.

High level ab initio investigations on molecular clusters are generally restricted to those of small size essentially due to the nonlinear scaling of corresponding computational cost. Molecular tailoring approach (MTA) is a fragmentation-based method, which offers an economical and efficient route for studying larger clusters. However, due to its approximate nature, the MTA-energies carry some errors vis-à-vis their full calculation counterparts.

Structures, energetics and vibrational spectra of CO2 clusters through molecular tailoring and cluster building algorithm.

Clusters of CO(2) are a subject of detailed experimental as well as theoretical investigations due to their interesting applications. In the present article, CO(2) clusters (n = 6 to 13) are studied at the MP2 level of theory. The clusters are grown using a cluster building algorithm developed by our group and the larger ones are optimized at the MP2/aug-cc-pVDZ level by employing a Molecular Tailoring Approach (MTA).