In order to theoretically study the growth morphology of dihydroxylammonium 5,5’-bistetrazole-1,1’-dio late(TKX-50)crystal in different solvent systems,crystal–solvent models were established,and then molecular dyn...In order to theoretically study the growth morphology of dihydroxylammonium 5,5’-bistetrazole-1,1’-dio late(TKX-50)crystal in different solvent systems,crystal–solvent models were established,and then molecular dynamics(MD)methods were adopted as a means to simulate particle motion.Modified attachment energy(MAE)model was employed to calculate the growth morphology of TKX-50.The simulation results demonstrate that COMPASS force field and RESP charge are suitable for molecular dynamics simulation of TKX-50.The morphologically dominant growth surfaces of TKX-50 in vacuum are(020),(011),(11–1),(100)and(120),respectively.In water(H_(2)O)and N,N-dimethylformamide(DMF)solvents,the(11–1)face is the largest in the habit face,the growth rate of(020)face becomes faster.With the increase of temperature,the aspect ratios of TKX-50 crystal in DMF solvent increase,and the areas of the(120)faces decrease.In ethylene glycol/H_(2)O mixed solvent system with volume ratio of 1/1,aspect ratio of TKX-50 is relatively small.In formic acid/H_(2)O mixed solvents with different volume ratios(1/4,1/3,1/2,1/1 and 2/1),aspect ratio of TKX-50 is relatively small when volume ratio is 1/2.展开更多
A large single crystal of TPAF-AlPO4-5 molecular sieve was synthesized by hydrothermal crystallization in the presence of ammonium fluoride. Starting material composition was · 1 P2O5 · 1 Al2O3 · 2. 2 T...A large single crystal of TPAF-AlPO4-5 molecular sieve was synthesized by hydrothermal crystallization in the presence of ammonium fluoride. Starting material composition was · 1 P2O5 · 1 Al2O3 · 2. 2 TPAOH · 1. 7 NH4F ·318 H2O. The crystal size has a hexagonal prism with 80μm across and 500μm length.The structure of tetrapropylarnmonium fluoride - aluminium phosphate type-5 was investigated with X-ray diffraction. The unit cell composition is 12AlPO4 · TPAF, space group P6cc (a= 13. 740(5), c= 8. 474(4) A ). Average bond distances are: P-O 1. 564A and Al-O 1. 640A ,which may be due to the partial disorder of the arrangement of P, Al in the framework. The angles of O-T-O and T-O-T (T?P, Al) are 102-116° and 148-176°, respectively. Residue electron density was not well enough defined to give a precise position for tetrapropylammonium fluoride (TPAF). The template agent, TPA+ cations, situate in the 12-ring channels and F- anions locate in double 4-rings near the 12-ring channels. Fixing atomic positions for the TPAF reduced the unweighted and weighted R, R, from 0. 063 and 0. 082 to 0. 046 and 0. 042,respectively.展开更多
Sodium 3,5-bis(hydroxyimino)-1-methyl-2,4,6-trioxocyclohexanide C7H5N2NaO5 (I) has been isolated as the only product of the reaction of nitrosation of methylphloroglucinol. The structure of the titled compound has bee...Sodium 3,5-bis(hydroxyimino)-1-methyl-2,4,6-trioxocyclohexanide C7H5N2NaO5 (I) has been isolated as the only product of the reaction of nitrosation of methylphloroglucinol. The structure of the titled compound has been determined from single crystal X-ray diffraction data. The hydrated C7H5N2NaO52.5H2O crystallizes in the monoclinic space group C2/c, with a(?) 16.408(3);b(?) 12.446(3);c(?) 13.716(3);(o) 126.34(3). The planar organic anion exists in a triketo-dihydroxyimino form with the C–O and C–N distances from 1.220(2) to 1.271(2)?? and from 1.292(2) to 1.293?? respectively. In the IR spectrum of I, the sharp absorption band occurred at 1681 cm-1 due to C=O stretching indicating the strong H-interactions. The correlations of theoretical (DFT-B3LYP/aug-cc-pVDZ) and experimental UV-vis absorption spectra in neutral and alkaline ethanolic solutions showed the existence of hydroxyimino-nitroso tautomerism while ionization of I.展开更多
In this paper, we report a method by which the ion quantity is estimated rapidly with an accuracy of 4%. This finding is based on the low-temperature ion density theory and combined with the ion crystal size obtained ...In this paper, we report a method by which the ion quantity is estimated rapidly with an accuracy of 4%. This finding is based on the low-temperature ion density theory and combined with the ion crystal size obtained from experiment with the precision of a micrometer. The method is objective, straightforward, and independent of the molecular dynamics （MD） simulation. The result can be used as the reference for the MD simulation, and the method can improve the reliability and precision of MD simulation. This method is very helpful for intensively studying ion crystal, such as phase transition, spatial configuration, temporal evolution, dynamic character, cooling efficiency, and the temperature limit of the ions.展开更多
A novel variational approach is proposed to calculate the ground-state （GS） properties of the two-site Holstein model. By the linear superposition of two coherent states, which simulate the behaviour of the weak and...A novel variational approach is proposed to calculate the ground-state （GS） properties of the two-site Holstein model. By the linear superposition of two coherent states, which simulate the behaviour of the weak and strong coupling limits, we can obtain very accurate GS energy for arbitrary electron-phonon coupling constant. Other GS properties are also discussed. Moreover, the present concise approach is hopefully generalized to many other Holstein models.展开更多
In this paper,the choice and parametrisation of finite deformation polyconvex isotropic hyperelastic models to describe the behaviour of a class of defect-free monocrystalline metal materials at the molecular level is...In this paper,the choice and parametrisation of finite deformation polyconvex isotropic hyperelastic models to describe the behaviour of a class of defect-free monocrystalline metal materials at the molecular level is examined.The article discusses some physical,mathematical and numerical demands which in our opinion should be fulfilled by elasticity models to be useful.A set of molecular numerical tests for aluminium and tungsten providing data for the fitting of a hyperelastic model was performed,and an algorithm for parametrisation is discussed.The proposed models with optimised parameters are superior to those used in non-linear mechanics of crystals.展开更多
In this paper, we evaluate semiempirical methods (AM1, PM3, and ZINDO), HF and DFT (B3LYP) in different basis sets to determine which method best describes the sign and magnitude of the geometrical parameters of artem...In this paper, we evaluate semiempirical methods (AM1, PM3, and ZINDO), HF and DFT (B3LYP) in different basis sets to determine which method best describes the sign and magnitude of the geometrical parameters of artemisinin in the region of the endoperoxide ring compared to crystallographic data. We also classify these methods using statistical analysis. The results of PCA were based on three main components, explaining 98.0539% of the total variance, for the geometrical parameters C3O13, O1O2C3, O13C12C12a, and O2C3O13C12. The DFT method (B3LYP) corresponded well with the experimental data in the hierarchical cluster analysis (HCA). The experimental and theoretical angles were analyzed by simple linear regression, and statistical parameters (correlation coefficients, significance, and predictability) were evaluated to determine the accuracy of the calculations. The statistical analysis exhibited a good correlation and high predictive power for the DFT (B3LYP) method in the 6-31G** basis set.展开更多
Crystal structure of conjugated molecules and polymers is fundamentally critical to understand their multilevel microstructures,carrier transport,and diverse functions.However,to determine the crystal structure of con...Crystal structure of conjugated molecules and polymers is fundamentally critical to understand their multilevel microstructures,carrier transport,and diverse functions.However,to determine the crystal structure of conjugated polymers is a significant challenge,mainly due to the poor crystallinity,weak diffraction,and instability under high-energy radiation.Here,we build the possible crystal structures of eight typical conjugated polymers,covering several widely used molecular segments in organic optoelectronics.We model the packing structures of these seed polymers based on synchrotron X-ray diffractions and molecular simulations.These crystal structures provide a new platform to predict the packing structures of more related polymer systems,extending the molecular scope.Based on this polymer crystal structure database,the multiscale microstructures and charge transport properties of conjugated polymers can be predicted before experiments.This study sets up a polymer crystal structure database to eliminate the current trial-and-error approaches and accelerating the design of high-performance conjugated polymers.展开更多
Colorectal cancer(CRC)is the second leading cause of cancer mortality worldwide.At initial diagnosis,approximately 20%of patients are diagnosed with metastatic CRC(mCRC).Although the APC-Asef interaction is a well-est...Colorectal cancer(CRC)is the second leading cause of cancer mortality worldwide.At initial diagnosis,approximately 20%of patients are diagnosed with metastatic CRC(mCRC).Although the APC-Asef interaction is a well-established target for mCRC therapy,the discovery and development of effective and safe drugs for mCRC patients remains an urgent and challenging endeavor.In this study,we identified a novel structural scaffold based on MAI inhibitors,the first-in-class APC-Asef inhibitors we reported previously.ONIOM model-driven optimizations of the N-terminal cap and experimental evaluations of inhibitory activity were performed,and 24-fold greater potency was obtained with the best inhibitor compared to the parental compound.In addition,the cocrystal structure validated that the two-layerπ-πstacking interactions were essential for inhibitor stabilization in the bound state.Furthermore,in vitro and in vivo studies have demonstrated that novel inhibitors suppressed lung metastasis in CRC by disrupting the APC-Asef interaction.These results provide an intrinsic structural basis to further explore drug-like molecules for APC-Asef-mediated CRC therapy.展开更多
基金supported by Fundamental Research Program of Shanxi Province(20210302123055)and(201801D221035).
文摘In order to theoretically study the growth morphology of dihydroxylammonium 5,5’-bistetrazole-1,1’-dio late(TKX-50)crystal in different solvent systems,crystal–solvent models were established,and then molecular dynamics(MD)methods were adopted as a means to simulate particle motion.Modified attachment energy(MAE)model was employed to calculate the growth morphology of TKX-50.The simulation results demonstrate that COMPASS force field and RESP charge are suitable for molecular dynamics simulation of TKX-50.The morphologically dominant growth surfaces of TKX-50 in vacuum are(020),(011),(11–1),(100)and(120),respectively.In water(H_(2)O)and N,N-dimethylformamide(DMF)solvents,the(11–1)face is the largest in the habit face,the growth rate of(020)face becomes faster.With the increase of temperature,the aspect ratios of TKX-50 crystal in DMF solvent increase,and the areas of the(120)faces decrease.In ethylene glycol/H_(2)O mixed solvent system with volume ratio of 1/1,aspect ratio of TKX-50 is relatively small.In formic acid/H_(2)O mixed solvents with different volume ratios(1/4,1/3,1/2,1/1 and 2/1),aspect ratio of TKX-50 is relatively small when volume ratio is 1/2.
文摘A large single crystal of TPAF-AlPO4-5 molecular sieve was synthesized by hydrothermal crystallization in the presence of ammonium fluoride. Starting material composition was · 1 P2O5 · 1 Al2O3 · 2. 2 TPAOH · 1. 7 NH4F ·318 H2O. The crystal size has a hexagonal prism with 80μm across and 500μm length.The structure of tetrapropylarnmonium fluoride - aluminium phosphate type-5 was investigated with X-ray diffraction. The unit cell composition is 12AlPO4 · TPAF, space group P6cc (a= 13. 740(5), c= 8. 474(4) A ). Average bond distances are: P-O 1. 564A and Al-O 1. 640A ,which may be due to the partial disorder of the arrangement of P, Al in the framework. The angles of O-T-O and T-O-T (T?P, Al) are 102-116° and 148-176°, respectively. Residue electron density was not well enough defined to give a precise position for tetrapropylammonium fluoride (TPAF). The template agent, TPA+ cations, situate in the 12-ring channels and F- anions locate in double 4-rings near the 12-ring channels. Fixing atomic positions for the TPAF reduced the unweighted and weighted R, R, from 0. 063 and 0. 082 to 0. 046 and 0. 042,respectively.
文摘Sodium 3,5-bis(hydroxyimino)-1-methyl-2,4,6-trioxocyclohexanide C7H5N2NaO5 (I) has been isolated as the only product of the reaction of nitrosation of methylphloroglucinol. The structure of the titled compound has been determined from single crystal X-ray diffraction data. The hydrated C7H5N2NaO52.5H2O crystallizes in the monoclinic space group C2/c, with a(?) 16.408(3);b(?) 12.446(3);c(?) 13.716(3);(o) 126.34(3). The planar organic anion exists in a triketo-dihydroxyimino form with the C–O and C–N distances from 1.220(2) to 1.271(2)?? and from 1.292(2) to 1.293?? respectively. In the IR spectrum of I, the sharp absorption band occurred at 1681 cm-1 due to C=O stretching indicating the strong H-interactions. The correlations of theoretical (DFT-B3LYP/aug-cc-pVDZ) and experimental UV-vis absorption spectra in neutral and alkaline ethanolic solutions showed the existence of hydroxyimino-nitroso tautomerism while ionization of I.
基金supported by the National Basic Research Program of China(Grant Nos.2012CB821301 and 2010CB832803)the National Natural Science Foundation of China(Grant Nos.11004222 and 91121016)the Chinese Academy of Sciences
文摘In this paper, we report a method by which the ion quantity is estimated rapidly with an accuracy of 4%. This finding is based on the low-temperature ion density theory and combined with the ion crystal size obtained from experiment with the precision of a micrometer. The method is objective, straightforward, and independent of the molecular dynamics （MD） simulation. The result can be used as the reference for the MD simulation, and the method can improve the reliability and precision of MD simulation. This method is very helpful for intensively studying ion crystal, such as phase transition, spatial configuration, temporal evolution, dynamic character, cooling efficiency, and the temperature limit of the ions.
基金Supported by the National Natural Science Foundation of China under Grant Nos 19804009 and 10274067.
文摘A novel variational approach is proposed to calculate the ground-state （GS） properties of the two-site Holstein model. By the linear superposition of two coherent states, which simulate the behaviour of the weak and strong coupling limits, we can obtain very accurate GS energy for arbitrary electron-phonon coupling constant. Other GS properties are also discussed. Moreover, the present concise approach is hopefully generalized to many other Holstein models.
文摘In this paper,the choice and parametrisation of finite deformation polyconvex isotropic hyperelastic models to describe the behaviour of a class of defect-free monocrystalline metal materials at the molecular level is examined.The article discusses some physical,mathematical and numerical demands which in our opinion should be fulfilled by elasticity models to be useful.A set of molecular numerical tests for aluminium and tungsten providing data for the fitting of a hyperelastic model was performed,and an algorithm for parametrisation is discussed.The proposed models with optimised parameters are superior to those used in non-linear mechanics of crystals.
文摘In this paper, we evaluate semiempirical methods (AM1, PM3, and ZINDO), HF and DFT (B3LYP) in different basis sets to determine which method best describes the sign and magnitude of the geometrical parameters of artemisinin in the region of the endoperoxide ring compared to crystallographic data. We also classify these methods using statistical analysis. The results of PCA were based on three main components, explaining 98.0539% of the total variance, for the geometrical parameters C3O13, O1O2C3, O13C12C12a, and O2C3O13C12. The DFT method (B3LYP) corresponded well with the experimental data in the hierarchical cluster analysis (HCA). The experimental and theoretical angles were analyzed by simple linear regression, and statistical parameters (correlation coefficients, significance, and predictability) were evaluated to determine the accuracy of the calculations. The statistical analysis exhibited a good correlation and high predictive power for the DFT (B3LYP) method in the 6-31G** basis set.
基金supported by National Key R&D Program of China(2017YFA0204701)National Natural Science Foundation of China(21420102005,21790360,21722201)Beijing Outstanding Young Scientist Program(BJJWZYJH01201910001001).
文摘Crystal structure of conjugated molecules and polymers is fundamentally critical to understand their multilevel microstructures,carrier transport,and diverse functions.However,to determine the crystal structure of conjugated polymers is a significant challenge,mainly due to the poor crystallinity,weak diffraction,and instability under high-energy radiation.Here,we build the possible crystal structures of eight typical conjugated polymers,covering several widely used molecular segments in organic optoelectronics.We model the packing structures of these seed polymers based on synchrotron X-ray diffractions and molecular simulations.These crystal structures provide a new platform to predict the packing structures of more related polymer systems,extending the molecular scope.Based on this polymer crystal structure database,the multiscale microstructures and charge transport properties of conjugated polymers can be predicted before experiments.This study sets up a polymer crystal structure database to eliminate the current trial-and-error approaches and accelerating the design of high-performance conjugated polymers.
基金funded by the National Key R&D Program of China(2023YFF1205103 to Jian Zhang)the Key Research and Construction Programs of Ningxia Hui Autonomous Region(2022BEG01002 to Jian Zhang,China)+3 种基金the Starry Night Science Fund of Zhejiang University Shanghai Institute for Advanced Study(SN-ZJU-SIAS-007 to Jian Zhang,China)the National Natural Science Foundation of China(22237005 and 81925034 to Jian Zhang)the open fund of state key laboratory of Pharmaceutical Biotechnology,Nanjing University(KF-202201 to Jian Zhang,China)the open fund of Basic Science Research Center Base(Pharmaceutical Science Y202203 to Xiuyan Yang,China).
文摘Colorectal cancer(CRC)is the second leading cause of cancer mortality worldwide.At initial diagnosis,approximately 20%of patients are diagnosed with metastatic CRC(mCRC).Although the APC-Asef interaction is a well-established target for mCRC therapy,the discovery and development of effective and safe drugs for mCRC patients remains an urgent and challenging endeavor.In this study,we identified a novel structural scaffold based on MAI inhibitors,the first-in-class APC-Asef inhibitors we reported previously.ONIOM model-driven optimizations of the N-terminal cap and experimental evaluations of inhibitory activity were performed,and 24-fold greater potency was obtained with the best inhibitor compared to the parental compound.In addition,the cocrystal structure validated that the two-layerπ-πstacking interactions were essential for inhibitor stabilization in the bound state.Furthermore,in vitro and in vivo studies have demonstrated that novel inhibitors suppressed lung metastasis in CRC by disrupting the APC-Asef interaction.These results provide an intrinsic structural basis to further explore drug-like molecules for APC-Asef-mediated CRC therapy.
