{"title":"v型神经毒剂安全处理分子动力学建模及光谱特性预测。","authors":"Koufou Antonios, Chalaris Michail","doi":"10.1007/s10822-025-00668-3","DOIUrl":null,"url":null,"abstract":"<div><p>Detailed molecular potential models of three major representative substances of V type agents were created and tested against the scarce available experimental results. Molecular Dynamics simulations were conducted, and first main focus was elucidating thermodynamic and transport properties of these highly toxic organophosphorus compounds. Alongside, an in-depth investigation of their intermolecular structure and vibrational spectra calculations were performed. Using classical simulations key thermodynamic quantities such as density, enthalpy of vaporization, heat capacity under constant pressure as well as transport properties such as viscosity and self-diffusion coefficient were computed. Molecular level structural organization was probed through pair radial distribution functions, providing insight into short range interactions and ordering of molecular sites and atoms, as well as coordination numbers. Furthermore, infrared spectra concerning vibrational states were derived from inverse Fourier transform of the total dipole autocorrelation function, revealing signature vibrational modes in the infrared fingerprint region for functional group identification. This combined approach offers a critical molecular insight into the behavior of V type chemical warfare agents under ambient conditions, contributing to predictive modelling and safe handling of these hazardous substances. This study presents the first comprehensive atomistic simulation of VX, RVX, and CVX, offering detailed thermodynamic, transport, and spectroscopic insights through refined OPLS-based potential models.</p></div>","PeriodicalId":621,"journal":{"name":"Journal of Computer-Aided Molecular Design","volume":"39 1","pages":""},"PeriodicalIF":3.1000,"publicationDate":"2025-09-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"Molecular dynamics modeling and spectroscopic property prediction of V-type nerve agents for safe handling\",\"authors\":\"Koufou Antonios, Chalaris Michail\",\"doi\":\"10.1007/s10822-025-00668-3\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<div><p>Detailed molecular potential models of three major representative substances of V type agents were created and tested against the scarce available experimental results. Molecular Dynamics simulations were conducted, and first main focus was elucidating thermodynamic and transport properties of these highly toxic organophosphorus compounds. Alongside, an in-depth investigation of their intermolecular structure and vibrational spectra calculations were performed. Using classical simulations key thermodynamic quantities such as density, enthalpy of vaporization, heat capacity under constant pressure as well as transport properties such as viscosity and self-diffusion coefficient were computed. Molecular level structural organization was probed through pair radial distribution functions, providing insight into short range interactions and ordering of molecular sites and atoms, as well as coordination numbers. Furthermore, infrared spectra concerning vibrational states were derived from inverse Fourier transform of the total dipole autocorrelation function, revealing signature vibrational modes in the infrared fingerprint region for functional group identification. This combined approach offers a critical molecular insight into the behavior of V type chemical warfare agents under ambient conditions, contributing to predictive modelling and safe handling of these hazardous substances. This study presents the first comprehensive atomistic simulation of VX, RVX, and CVX, offering detailed thermodynamic, transport, and spectroscopic insights through refined OPLS-based potential models.</p></div>\",\"PeriodicalId\":621,\"journal\":{\"name\":\"Journal of Computer-Aided Molecular Design\",\"volume\":\"39 1\",\"pages\":\"\"},\"PeriodicalIF\":3.1000,\"publicationDate\":\"2025-09-30\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Journal of Computer-Aided Molecular Design\",\"FirstCategoryId\":\"99\",\"ListUrlMain\":\"https://link.springer.com/article/10.1007/s10822-025-00668-3\",\"RegionNum\":3,\"RegionCategory\":\"生物学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q3\",\"JCRName\":\"BIOCHEMISTRY & MOLECULAR BIOLOGY\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Journal of Computer-Aided Molecular Design","FirstCategoryId":"99","ListUrlMain":"https://link.springer.com/article/10.1007/s10822-025-00668-3","RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q3","JCRName":"BIOCHEMISTRY & MOLECULAR BIOLOGY","Score":null,"Total":0}
Molecular dynamics modeling and spectroscopic property prediction of V-type nerve agents for safe handling
Detailed molecular potential models of three major representative substances of V type agents were created and tested against the scarce available experimental results. Molecular Dynamics simulations were conducted, and first main focus was elucidating thermodynamic and transport properties of these highly toxic organophosphorus compounds. Alongside, an in-depth investigation of their intermolecular structure and vibrational spectra calculations were performed. Using classical simulations key thermodynamic quantities such as density, enthalpy of vaporization, heat capacity under constant pressure as well as transport properties such as viscosity and self-diffusion coefficient were computed. Molecular level structural organization was probed through pair radial distribution functions, providing insight into short range interactions and ordering of molecular sites and atoms, as well as coordination numbers. Furthermore, infrared spectra concerning vibrational states were derived from inverse Fourier transform of the total dipole autocorrelation function, revealing signature vibrational modes in the infrared fingerprint region for functional group identification. This combined approach offers a critical molecular insight into the behavior of V type chemical warfare agents under ambient conditions, contributing to predictive modelling and safe handling of these hazardous substances. This study presents the first comprehensive atomistic simulation of VX, RVX, and CVX, offering detailed thermodynamic, transport, and spectroscopic insights through refined OPLS-based potential models.
期刊介绍:
The Journal of Computer-Aided Molecular Design provides a form for disseminating information on both the theory and the application of computer-based methods in the analysis and design of molecules. The scope of the journal encompasses papers which report new and original research and applications in the following areas:
- theoretical chemistry;
- computational chemistry;
- computer and molecular graphics;
- molecular modeling;
- protein engineering;
- drug design;
- expert systems;
- general structure-property relationships;
- molecular dynamics;
- chemical database development and usage.