Addressing Dynamics at Catalytic Heterogeneous Interfaces with DFT-MD : Anomalous Temperature Distributions from Commonly Used Thermostats
Korpelin, V., Kiljunen, T., Melander, M. M., Caro, M. A., Kristoffersen, H. H., Mammen, N., Apaja, V., & Honkala, K. (2022). Addressing Dynamics at Catalytic Heterogeneous Interfaces with DFT-MD : Anomalous Temperature Distributions from Commonly Used Thermostats. Journal of Physical Chemistry Letters, 13(11), 2644-2652. https://doi.org/10.1021/acs.jpclett.2c00230
Julkaistu sarjassa
Journal of Physical Chemistry LettersTekijät
Päivämäärä
2022Oppiaine
Fysikaalinen kemiaNanoscience CenterResurssiviisausyhteisöPhysical ChemistryNanoscience CenterSchool of Resource WisdomTekijänoikeudet
© 2022 The Authors. Published by American Chemical Society
Density functional theory-based molecular dynamics (DFT-MD) has been widely used for studying the chemistry of heterogeneous interfacial systems under operational conditions. We report frequently overlooked errors in thermostated or constant-temperature DFT-MD simulations applied to study (electro)catalytic chemistry. Our results demonstrate that commonly used thermostats such as Nose−Hoover, Berendsen, and simple velocity rescaling methods fail to provide are liable temperature description for systems considered. Instead, nonconstant temperatures and large temperature gradients within the different parts of the system are observed. The errors are not a “feature” of any particular code but a represent in several ab initio molecular dynamics implementations. This uneven temperature distribution, due to inadequate thermostatting, is well-known in the classical MD community, where it is ascribed to the failure in kinetic energy equipartition among different degrees of freedom in heterogeneous systems (Harvey et al. J. Comput. Chem. 1998, 726−740) and termed the flying ice cube effect. We provide tantamount evidence that interfacial systems are susceptible to substantial flying ice cube effects and demonstrate that the traditional Nose−Hoover and Berendsen thermostats should be applied with care when simulating, for example, catalytic properties or structures of solvated interfaces and supported clusters. We conclude that the flying ice cube effect in these systems can be conveniently avoided using Langevin dynamics.
...
Julkaisija
American Chemical Society (ACS)ISSN Hae Julkaisufoorumista
1948-7185Julkaisu tutkimustietojärjestelmässä
https://converis.jyu.fi/converis/portal/detail/Publication/104668333
Metadata
Näytä kaikki kuvailutiedotKokoelmat
Rahoittaja(t)
Suomen Akatemia; Jane ja Aatos Erkon säätiöRahoitusohjelmat(t)
Akatemiahanke, SA; Tutkijatohtori, SA; Akatemiatutkija, SA; SäätiöLisätietoja rahoituksesta
The project was funded by the Academy of Finland projects 307853 (M.M.M.), 338228 (M.M.M.), 310574 (M.A.C.), 330488 (M.A.C.), 317739 (M.M.M., N.M., and K.H.), and 332290 (N.M.). M.M.M. and K.H. also acknowledge Jane and Aatos Erkko Foundation for funding to the LACOR project.Lisenssi
Samankaltainen aineisto
Näytetään aineistoja, joilla on samankaltainen nimeke tai asiasanat.
-
2023 Roadmap on molecular modelling of electrochemical energy materials
Zhang, Chao; Cheng, Jun; Chen, Yiming; Chan, Maria K. Y.; Cai, Qiong; Carvalho, Rodrigo P.; Marchiori, Cleber F. N.; Brandell, Daniel; Araujo, C. Moyses; Chen, Ming; Ji, Xiangyu; Feng, Guang; Goloviznina, Kateryna; Serva, Alessandra; Salanne, Mathieu; Mandai, Toshihiko; Hosaka, Tomooki; Alhanash, Mirna; Johansson, Patrik; Qiu, Yun-Ze; Xiao, Hai; Eikerling, Michael; Jinnouchi, Ryosuke; Melander, Marko M.; Kastlunger, Georg; Bouzid, Assil; Pasquarello, Alfredo; Shin, Seung-Jae; Kim, Minho M.; Kim, Hyungjun; Schwarz, Kathleen; Sundararaman, Ravishankar (IOP Publishing, 2023)New materials for electrochemical energy storage and conversion are the key to the electrification and sustainable development of our modern societies. Molecular modelling based on the principles of quantum mechanics and ... -
Metal–water interface formation : Thermodynamics from ab initio molecular dynamics simulations
Domínguez-Flores, Fabiola; Kiljunen, Toni; Groß, Axel; Sakong, Sung; Melander, Marko M. (AIP Publishing, 2024)Metal–water interfaces are central to many electrochemical, (electro)catalytic, and materials science processes and systems. However, our current understanding of their thermodynamic properties is limited by the scarcity ... -
Addressing the interoperability challenge of combining heterogeneous data sources in a data-driven solution
Ojala, Veli-Matti (2017)Dataohjautuvat ratkaisut yhdistävät usein erilaisten ja heterogeenisten tietolähteiden tietoja. Nämä tietolähteet voivat käyttää erilaisia verkkokerrosprotokollia, viestikerroksen protokollia, dataformaatteja ja semanttisia ... -
Modulation of Structural Heterogeneity Controls Phytochrome Photoswitching
Gustavsson, Emil; Isaksson, Linnéa; Persson, Cecilia; Mayzel, Maxim; Brath, Ulrika; Vrhovac, Lidija; Ihalainen, Janne A.; Karlsson, B. Göran; Orekhov, Vladislav; Westenhoff, Sebastian (Cell Press, 2020)Phytochromes sense red/far-red light and control many biological processes in plants, fungi, and bacteria. Although crystal structures of dark and light adapted states have been determined, the molecular mechanisms underlying ... -
A Homoleptic Alkynyl‐Ligated [Au13Ag16L24]3‐ Cluster as a Catalytically Active Eight‐Electron Superatom
Li, Gao; Hakkinen, Hannu; Qin, Zhaoxian; Sharma, Sachil; Wan, Chong-qing; Xu, Wen-wu; Malola, Sami (Wiley, 2021)A brand new alkynylated cluster [Au 13 Ag 16 (C 10 H 6 NO) 24 ] 3- is prepared by NaBH 4 mediated reduction method. The AuAg clusters are confirmed by various sophisticated characterization techniques. It manifested the ...
Ellei toisin mainittu, julkisesti saatavilla olevia JYX-metatietoja (poislukien tiivistelmät) saa vapaasti uudelleenkäyttää CC0-lisenssillä.