Bharti Dehariya, Mini Bharati Ahirwar, Ayush Shivhare, Milind M. Deshmukh
{"title":"Appraisal of the Fragments‐In‐Fragments Method for the Energetics of Individual Hydrogen Bonds in Molecular Crystals","authors":"Bharti Dehariya, Mini Bharati Ahirwar, Ayush Shivhare, Milind M. Deshmukh","doi":"10.1002/jcc.70008","DOIUrl":null,"url":null,"abstract":"We report a direct application of the molecular tailoring approach‐based (MTA‐based) method to calculate the individual hydrogen bond (HB) energy in molecular crystal. For this purpose, molecular crystals of nitromalonamide (NMA) and salicylic acid (SA) were taken as test cases. Notably, doing a correlated computation using a large molecular crystal structure is difficult. Among 15 density functional theory functionals, the B3LYP provides accurate estimates of HB energies closed to the CCSD(T) ones using the 6–311 + G(d,p) basis set for all atoms. The direct application of the MTA‐based method to these crystal structures is although straightforward. For instance, the calculated energy suggests that three intramolecular HBs in NMA crystal are of stronger strength (7.3–17.0 kcal/mol) than the intermolecular ones (2.7–4.0 kcal/mol). On the other hand, intermolecular HB in SA crystal is moderately stronger (9.9 kcal/mol) than intramolecular one (8.1 kcal/mol). However, these energy calculations by the MTA‐based method are very expensive. For instance, the time needed to evaluate the energy of all seven HBs in NMA crystal (having molecules within maximum of 15 unit cells) is 122,681 min (~2.7 months). In view of this, we assessed our recently proposed linear‐scaling Fragments‐in‐Fragments (<jats:italic>Frags‐in‐Frags</jats:italic>) method for estimating the single‐point energies of parent molecular crystal and fragments of the MTA‐based method. It has been found that the estimated HB energies by the <jats:italic>Frags‐in‐Frags</jats:italic> method are in excellent linear agreement with their MTA‐based counterparts (R<jats:sup>2</jats:sup> = 0.9993). Furthermore, root mean square deviation is 0.12 kcal/mol. Mean and maximum absolute errors are 0.10 and 0.5 kcal/mol, respectively, and the standard deviation is 0.14 kcal/mol. Importantly, the <jats:italic>Frags‐in‐Frags</jats:italic> method is computationally efficient; it needs only 18,289 min (~12.7 days) for the estimation of energy of all HBs in NMA crystal and 3499 min (~2.4 days) for all HBs in SA crystal.","PeriodicalId":188,"journal":{"name":"Journal of Computational Chemistry","volume":"37 1","pages":""},"PeriodicalIF":3.4000,"publicationDate":"2025-01-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Journal of Computational Chemistry","FirstCategoryId":"92","ListUrlMain":"https://doi.org/10.1002/jcc.70008","RegionNum":3,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q2","JCRName":"CHEMISTRY, MULTIDISCIPLINARY","Score":null,"Total":0}
引用次数: 0
Abstract
We report a direct application of the molecular tailoring approach‐based (MTA‐based) method to calculate the individual hydrogen bond (HB) energy in molecular crystal. For this purpose, molecular crystals of nitromalonamide (NMA) and salicylic acid (SA) were taken as test cases. Notably, doing a correlated computation using a large molecular crystal structure is difficult. Among 15 density functional theory functionals, the B3LYP provides accurate estimates of HB energies closed to the CCSD(T) ones using the 6–311 + G(d,p) basis set for all atoms. The direct application of the MTA‐based method to these crystal structures is although straightforward. For instance, the calculated energy suggests that three intramolecular HBs in NMA crystal are of stronger strength (7.3–17.0 kcal/mol) than the intermolecular ones (2.7–4.0 kcal/mol). On the other hand, intermolecular HB in SA crystal is moderately stronger (9.9 kcal/mol) than intramolecular one (8.1 kcal/mol). However, these energy calculations by the MTA‐based method are very expensive. For instance, the time needed to evaluate the energy of all seven HBs in NMA crystal (having molecules within maximum of 15 unit cells) is 122,681 min (~2.7 months). In view of this, we assessed our recently proposed linear‐scaling Fragments‐in‐Fragments (Frags‐in‐Frags) method for estimating the single‐point energies of parent molecular crystal and fragments of the MTA‐based method. It has been found that the estimated HB energies by the Frags‐in‐Frags method are in excellent linear agreement with their MTA‐based counterparts (R2 = 0.9993). Furthermore, root mean square deviation is 0.12 kcal/mol. Mean and maximum absolute errors are 0.10 and 0.5 kcal/mol, respectively, and the standard deviation is 0.14 kcal/mol. Importantly, the Frags‐in‐Frags method is computationally efficient; it needs only 18,289 min (~12.7 days) for the estimation of energy of all HBs in NMA crystal and 3499 min (~2.4 days) for all HBs in SA crystal.
期刊介绍:
This distinguished journal publishes articles concerned with all aspects of computational chemistry: analytical, biological, inorganic, organic, physical, and materials. The Journal of Computational Chemistry presents original research, contemporary developments in theory and methodology, and state-of-the-art applications. Computational areas that are featured in the journal include ab initio and semiempirical quantum mechanics, density functional theory, molecular mechanics, molecular dynamics, statistical mechanics, cheminformatics, biomolecular structure prediction, molecular design, and bioinformatics.