[{"language":[{"iso":"eng"}],"_id":"64071","main_file_link":[{"url":"https://arxiv.org/abs/2503.11867"}],"user_id":"77439","author":[{"id":"77439","full_name":"Wu, Xin","first_name":"Xin","last_name":"Wu"},{"id":"60250","full_name":"Elgabarty, Hossam","orcid":"0000-0002-4945-1481","first_name":"Hossam","last_name":"Elgabarty"},{"full_name":"Alizadeh, Vahideh","first_name":"Vahideh","last_name":"Alizadeh"},{"first_name":"Andres","last_name":"Henao Aristizabal","full_name":"Henao Aristizabal, Andres","id":"67235"},{"id":"14757","last_name":"Zysk","first_name":"Frederik","full_name":"Zysk, Frederik"},{"id":"16153","orcid":"0000-0001-5728-9982","first_name":"Christian","last_name":"Plessl","full_name":"Plessl, Christian"},{"full_name":"Ehlert, Sebastian","first_name":"Sebastian","last_name":"Ehlert"},{"full_name":"Hutter, Jürg","first_name":"Jürg","last_name":"Hutter"},{"full_name":"Kühne, Thomas D.","last_name":"Kühne","first_name":"Thomas D.","id":"49079"}],"title":"Benchmarking semi-empirical quantum chemical methods on liquid water","status":"public","year":"2025","date_updated":"2026-02-09T09:17:07Z","date_created":"2026-02-09T09:03:41Z","department":[{"_id":"27"},{"_id":"2"}],"type":"preprint","citation":{"bibtex":"@article{Wu_Elgabarty_Alizadeh_Henao Aristizabal_Zysk_Plessl_Ehlert_Hutter_Kühne_2025, title={Benchmarking semi-empirical quantum chemical methods on liquid water}, author={Wu, Xin and Elgabarty, Hossam and Alizadeh, Vahideh and Henao Aristizabal, Andres and Zysk, Frederik and Plessl, Christian and Ehlert, Sebastian and Hutter, Jürg and Kühne, Thomas D.}, year={2025} }","chicago":"Wu, Xin, Hossam Elgabarty, Vahideh Alizadeh, Andres Henao Aristizabal, Frederik Zysk, Christian Plessl, Sebastian Ehlert, Jürg Hutter, and Thomas D. Kühne. “Benchmarking Semi-Empirical Quantum Chemical Methods on Liquid Water,” 2025.","short":"X. Wu, H. Elgabarty, V. Alizadeh, A. Henao Aristizabal, F. Zysk, C. Plessl, S. Ehlert, J. Hutter, T.D. Kühne, (2025).","ama":"Wu X, Elgabarty H, Alizadeh V, et al. Benchmarking semi-empirical quantum chemical methods on liquid water. Published online 2025.","ieee":"X. Wu <i>et al.</i>, “Benchmarking semi-empirical quantum chemical methods on liquid water.” 2025.","apa":"Wu, X., Elgabarty, H., Alizadeh, V., Henao Aristizabal, A., Zysk, F., Plessl, C., Ehlert, S., Hutter, J., &#38; Kühne, T. D. (2025). <i>Benchmarking semi-empirical quantum chemical methods on liquid water</i>.","mla":"Wu, Xin, et al. <i>Benchmarking Semi-Empirical Quantum Chemical Methods on Liquid Water</i>. 2025."},"project":[{"_id":"52","name":"Computing Resources Provided by the Paderborn Center for Parallel Computing"}],"abstract":[{"text":"Stimulated by the renewed interest and recent developments in semi-empirical quantum chemical (SQC) methods for noncovalent interactions, we examine the properties of liquid water at ambient conditions by means of molecular dynamics (MD) simulations, both with the conventional NDDO-type (neglect of diatomic differential overlap) methods, e.g. AM1 and PM6, and with DFTB-type (density-functional tight-binding) methods, e.g. DFTB2 and GFN-xTB. Besides the original parameter sets, some specifically reparametrized SQC methods (denoted as AM1-W, PM6-fm, and DFTB2-iBi) targeting various smaller water systems ranging from molecular clusters to bulk are considered as well. The quality of these different SQC methods for describing liquid water properties at ambient conditions are assessed by comparison to well-established experimental data and also to BLYP-D3 density functional theory-based ab initio MD simulations. Our analyses reveal that static and dynamics properties of bulk water are poorly described by all considered SQC methods with the original parameters, regardless of the underlying theoretical models, with most of the methods suffering from too weak hydrogen bonds and hence predicting a far too fluid water with highly distorted hydrogen bond kinetics. On the other hand, the reparametrized force-matchcd PM6-fm method is shown to be able to quantitatively reproduce the static and dynamic features of liquid water, and thus can be used as a computationally efficient alternative to electronic structure-based MD simulations for liquid water that requires extended length and time scales. DFTB2-iBi predicts a slightly overstructured water with reduced fluidity, whereas AM1-W gives an amorphous ice-like structure for water at ambient conditions.","lang":"eng"}]},{"language":[{"iso":"eng"}],"_id":"33678","publisher":"American Chemical Society (ACS)","user_id":"71051","title":"On the Role of Hydrogen Bond Strength and Charge Transfer of a Diels-Alder Reaction On-Water: Semiempirical and Free Energy Calculations.","year":"2022","status":"public","author":[{"last_name":"Henao Aristizabal","first_name":"Andres","full_name":"Henao Aristizabal, Andres","id":"67235"},{"full_name":"Gohar, Yomna","last_name":"Gohar","first_name":"Yomna"},{"first_name":"René","last_name":"Whilhelm","full_name":"Whilhelm, René"},{"id":"49079","full_name":"Kühne, Thomas","last_name":"Kühne","first_name":"Thomas"}],"publication_status":"published","date_updated":"2022-10-11T08:11:23Z","date_created":"2022-10-11T08:11:10Z","type":"preprint","department":[{"_id":"613"}],"citation":{"ama":"Henao Aristizabal A, Gohar Y, Whilhelm R, Kühne T. On the Role of Hydrogen Bond Strength and Charge Transfer of a Diels-Alder Reaction On-Water: Semiempirical and Free Energy Calculations. Published online 2022.","bibtex":"@article{Henao Aristizabal_Gohar_Whilhelm_Kühne_2022, title={On the Role of Hydrogen Bond Strength and Charge Transfer of a Diels-Alder Reaction On-Water: Semiempirical and Free Energy Calculations.}, publisher={American Chemical Society (ACS)}, author={Henao Aristizabal, Andres and Gohar, Yomna and Whilhelm, René and Kühne, Thomas}, year={2022} }","mla":"Henao Aristizabal, Andres, et al. <i>On the Role of Hydrogen Bond Strength and Charge Transfer of a Diels-Alder Reaction On-Water: Semiempirical and Free Energy Calculations.</i> American Chemical Society (ACS), 2022.","short":"A. Henao Aristizabal, Y. Gohar, R. Whilhelm, T. Kühne, (2022).","chicago":"Henao Aristizabal, Andres, Yomna Gohar, René Whilhelm, and Thomas Kühne. “On the Role of Hydrogen Bond Strength and Charge Transfer of a Diels-Alder Reaction On-Water: Semiempirical and Free Energy Calculations.” American Chemical Society (ACS), 2022.","apa":"Henao Aristizabal, A., Gohar, Y., Whilhelm, R., &#38; Kühne, T. (2022). <i>On the Role of Hydrogen Bond Strength and Charge Transfer of a Diels-Alder Reaction On-Water: Semiempirical and Free Energy Calculations.</i> American Chemical Society (ACS).","ieee":"A. Henao Aristizabal, Y. Gohar, R. Whilhelm, and T. Kühne, “On the Role of Hydrogen Bond Strength and Charge Transfer of a Diels-Alder Reaction On-Water: Semiempirical and Free Energy Calculations.” American Chemical Society (ACS), 2022."},"abstract":[{"text":"<jats:p>Accelerated chemistry at the interface with water has received increasing attention. The mechanisms behind the enhanced reactivity On-Water are not yet clear. In this work we use a Langevin scheme in the spirit of second generation Car-Parrinello to accelerate the second-order density functional Tight-Binding (DFTB2) method in order to investigate the free energy of two Diels-Alder reaction On-Water: the cycloaddition between cyclopentadiene and ethyl cinnamate or thionocinnamate. The only difference between the reactants is the substitution of a carbonyl oxygen for a thiocarbonyl sulfur, making possible the distinction between them as strong and weak hydrogen-bond acceptors. We find a different mechanism for the reaction during the transition states and uncover the role of hydrogen bonds along with the reaction path. Our results suggest that acceleration of Diels-Alder reactions do not arise from an increased number of hydrogen bonds at the transition state and charge transfer plays a significant role. However, the presence of water and hydrogen-bonds is determinant for the catalysis of these reactions.</jats:p>","lang":"eng"}]}]