Strong Coulombic repulsion in small doubly charged molecular ions usually leads to fragmentation.Some of these ions,such as CO_(2)^(++),could survive and be detected if they are stable or metastable in energetics,but ...Strong Coulombic repulsion in small doubly charged molecular ions usually leads to fragmentation.Some of these ions,such as CO_(2)^(++),could survive and be detected if they are stable or metastable in energetics,but how to produce these observable doubly charged ions is a puzzling issue.Here we investigate CO_(2)^(++)production by electron-impact ionization with a supersonic molecular beam of CO_(2)under different nozzle pressures,using time-of-flight mass spectrometry measurements and ab initio calculations.The mass spectral profile of CO_(2)^(++)varies slightly with the nozzle pressure,implying different mechanisms of the ion production.The calculations indicate that the ground state of CO_(2)^(++)is 3Aʺwith a nonlinear conformation,while the linear conformer is in the first excited state 1Δ_(g).We further suggest that,besides CO_(2)^(++)(1Δ_(g))produced from CO_(2),CO_(2)^(++)(3Aʺ)could be produced by the dissociation of doubly charged dimer(C2O4^(++))in a repulsive triplet state.展开更多
Taking an image of their structure and a movie of their dynamics of small quantum systems have always been a dream of physicists and chemists. Laser-induced Coulomb explosion imaging(CEI) provides a great opportunity ...Taking an image of their structure and a movie of their dynamics of small quantum systems have always been a dream of physicists and chemists. Laser-induced Coulomb explosion imaging(CEI) provides a great opportunity to make this dream a reality for small molecules or their aggregation — clusters. The method is unique for identifying the atomic locations with angstrom spatial resolution and capturing the structural evolution with a femtosecond time scale, in particular for imaging transient state products. This review summarizes the determination of three-dimensional equilibrium geometry of molecules and molecular cluster system through the reconstruction from the fragments momenta, and also shows that the dissociation dynamics on the complex potential energy surface can be tracked in real-time with the ultrafast CEI(UCEI).Furthermore, the detailed measurement and analysis procedures of the CEI, theoretical methods, exemplary results, and future perspectives of the technique are described.展开更多
Metal-based antimicrobial materials have been extensively studied and applied over decades.While these materials are notably characterized by their superior antibacterial performance and low propensity to induce drug ...Metal-based antimicrobial materials have been extensively studied and applied over decades.While these materials are notably characterized by their superior antibacterial performance and low propensity to induce drug resistance,critical limitations such as inherent cytotoxicity,poor solubility,and instability in aqueous solution remain significant challenges requiring systematic optimization.In this study,we synthesized water-soluble molecular iron-oxo clusters(MIC)with excellent biosafety and stability of aqueous solution.Our findings demonstrate that MIC exhibits marked therapeutic efficacy in cecal ligation and puncture induced sepsis models,a critical validation given sepsis'etiology as a life-threatening infection mediated systemic inflammatory syndrome.MIC combats bacteria by enhancing humoral immune responsiveness.MIC significantly improved the survival rate,reduced bacterial burden,stabilized body temperature,and modulated cytokine profiles in mice with sepsis.Further investigations revealed that MIC promotes B cells proliferation and oxidative phosphorylation,and mitigates mitochondrial damage and apoptosis in B cells,suggesting its role in modulating cellular metabolism.RNA sequencing analysis demonstrated that MIC exerts its effects by influencing key pathways involved in humoral immunity,inflammatory responses,and metabolic adaptation.These findings establish MIC as a novel therapeutic agent for regulating immune responses in sepsis,providing innovative strategies to improve recovery from this life-threatening condition.展开更多
Performing cluster analysis on molecular conformation is an important way to find the representative conformation in the molecular dynamics trajectories.Usually,it is a critical step for interpreting complex conformat...Performing cluster analysis on molecular conformation is an important way to find the representative conformation in the molecular dynamics trajectories.Usually,it is a critical step for interpreting complex conformational changes or interaction mechanisms.As one of the density-based clustering algorithms,find density peaks(FDP)is an accurate and reasonable candidate for the molecular conformation clustering.However,facing the rapidly increasing simulation length due to the increase in computing power,the low computing efficiency of FDP limits its application potential.Here we propose a marginal extension to FDP named K-means find density peaks(KFDP)to solve the mass source consuming problem.In KFDP,the points are initially clustered by a high efficiency clustering algorithm,such as K-means.Cluster centers are defined as typical points with a weight which represents the cluster size.Then,the weighted typical points are clustered again by FDP,and then are refined as core,boundary,and redefined halo points.In this way,KFDP has comparable accuracy as FDP but its computational complexity is reduced from O(n^(2))to O(n).We apply and test our KFDP method to the trajectory data of multiple small proteins in terms of torsion angle,secondary structure or contact map.The comparing results with K-means and density-based spatial clustering of applications with noise show the validation of the proposed KFDP.展开更多
The sintering process of nanometer size gold clusters is investigated by using molecular dynamics simulation in the frame of embedded atomistic method. Several molecular dynamics simulation techniques are used to obse...The sintering process of nanometer size gold clusters is investigated by using molecular dynamics simulation in the frame of embedded atomistic method. Several molecular dynamics simulation techniques are used to observe and describe the evolution of the sintering process. The energy distribution for single cluster is examined and the snapshots of sintering process of two clusters are recorded. The evolution of sintering is also described by plotting the mass center changes with time for each cluster. The variations of kinetic and potential energy during the process of sintering are monitored and measured to analyze the dominant mechanisms of sintering from the energy point of view.展开更多
The effects of the diameters of single-walled carbon nanotubes （SWCNTs） （7.83A to 27.40A） and temperature （20 K-45 K） on the equilibrium structure of an argon cluster are systematically studied by molecular dyna...The effects of the diameters of single-walled carbon nanotubes （SWCNTs） （7.83A to 27.40A） and temperature （20 K-45 K） on the equilibrium structure of an argon cluster are systematically studied by molecular dynamics simulation with consideration of the SWCNTs to be fixed. Since the diameters of SWCNTs with different chiralities increase when temperature is fixed at 20 K, the equilibrium structures of the argon cluster transform from monoatomic chains to helical and then to multishell coaxial cylinders. Chirality has almost no noticeable influence on these cylindrosymmetric structures. The effects of temperature and a non-equilibrium sudden heating process on the structures of argon clusters in SWCNTs are also studied by molecular dynamics simulation.展开更多
Structure-based virtual screening（molecular docking）is now one of the most pragmatic techniques to leverage target structure for ligand discovery.Accurate binding pose prediction is critical to molecular docking.Her...Structure-based virtual screening（molecular docking）is now one of the most pragmatic techniques to leverage target structure for ligand discovery.Accurate binding pose prediction is critical to molecular docking.Here,we describe a general strategy to improve the accuracy of docking pose prediction by implementing the structural descriptor-based fltering and KGS-penalty function-based conformational clustering in an unbiased manner.We assessed our method against 150 high-quality protein–ligand complex structures.Surprisingly,such simple components are suffcient to improve the accuracy of docking pose prediction.The success rate of predicting near-native docking pose increased from 53%of the targets to 78%.We expect that our strategy may have general usage in improving currently available molecular docking programs.展开更多
The energy-localized CNDO/2 molecular orbitals have been calculated for the cluster anions of [Co_6 (CO)_(14)]￣(4-) and [Ni_2Co_4 (CO)_(14)]￣(2-)in order to get a deeper insight into the nature of their skeletal bon...The energy-localized CNDO/2 molecular orbitals have been calculated for the cluster anions of [Co_6 (CO)_(14)]￣(4-) and [Ni_2Co_4 (CO)_(14)]￣(2-)in order to get a deeper insight into the nature of their skeletal bonding. The bonding characteristics of these hexanuclear carbonyl cobaltates are described from a localization bonding viewpoint. There are two typical M-CO bondings, one of which is formed by electron donation from the terminal and capping carbonyl ligands into the vacant hybrid orbitals on the metal atoms , leading to formation ofσ(C_t→Co) and σ(C_b→{Co_3})bonds. The other typical M-CO bonding is back donation of the lone d-electron pairs on the metal atoms into the carbonyl ligands, forming π(Co→C_t) bonds, σ(Co→{C_(b2)}) bonds and π(Co→{C_(b4)} ) bonds. It is found that there are no direct metalmetal bondings in the skeletons of these two cluster anions.The delocalization situation of the skeletal bonding electrons is briefly discussed.展开更多
Three coalescence processes of Cu57-Cu57, Cu57-Cu58, and Cu5s Cu58 clusters at 300 K are investigated by employing molecular dynamics simulations. According to the evolutions of mean square displacement and local atom...Three coalescence processes of Cu57-Cu57, Cu57-Cu58, and Cu5s Cu58 clusters at 300 K are investigated by employing molecular dynamics simulations. According to the evolutions of mean square displacement and local atom packing, the coalescence process can be separated into three stages including an approaching stage, a coalescing stage, and a coalesced stage. The simulations show that the coalescence processes and the formed products are sensitive to the respective initial structures of, and the relative configuration between, the two coalescing icosahedron-based clusters.展开更多
The melting and freezing processes of CUN （N =180, 256, 360, 408, 500, 628 and 736） nanoclnsters are simulated by using micro-canonical molecular dynamics simulation technique, The potential energies and the heat ca...The melting and freezing processes of CUN （N =180, 256, 360, 408, 500, 628 and 736） nanoclnsters are simulated by using micro-canonical molecular dynamics simulation technique, The potential energies and the heat capacities as a function of temperature are obtained. The results reveal that the melting and freezing points increase almost linearly with the atom number in the cluster increasing. All copper nanoclusters have negative heat capacity around the melting and freezing points, and hysteresis effect in the melting/freezing transition is derived in CUN nanoclusters for the first time.展开更多
The localized molecular orbitals and energy levels for [Co_6 (μ_3-S)_8 (PH_3)_6]￣(n+)(n=0, 1) as model molecules of the electron-rich [Co_6 (μ_3-S)_8 (PPh_3)_6]￣(n+) (n=0,1) cluster compounds have been calculated ...The localized molecular orbitals and energy levels for [Co_6 (μ_3-S)_8 (PH_3)_6]￣(n+)(n=0, 1) as model molecules of the electron-rich [Co_6 (μ_3-S)_8 (PPh_3)_6]￣(n+) (n=0,1) cluster compounds have been calculated by using Edmiston-Ruedenberg energy localization scheme under the spin-unrestricted CNDO/2 approximation. It is shown that the cluster skeletons of these two isostructural molecules consist of the edge-localized two-centered two-electron (Co-S) bonds plus a pair of the skeleton electrons delocalized on the whole cluster core,leading an extra stability of the cluster core.The one-electron oxidation for the neutral molecule gives rise to a one-electron σ (Co-Co) bond.which further resonates among the three diagonal lines of the {Co_6} octahedron. The comparison between [Co_6 (μ_3-S)_8(PPh_3)_6] and [Co_6(μ_3-CO)_8(CO)_6]￣(4-) indicates that the latter possesses face-localized bridging-bonds which are further delocalized on the whole surface of the cluster octahedron by the back-donation bonds from the lone electron pairs on the Co atoms to the capping carbonyl CO ligands. The structural features of the series of the [Co6(μ_3-X)_8L_6]￣(n+)(X =S, Se; L=PPh_3,PEt_3, CO;n=0, 1) cluster compounds are briefly rationalized on the basis of the localization description as well.展开更多
The new cluster[Mo_4(μ_3-O)_2O_4Cl_2(o-CH_3C_6H_4COO)_6]has been prepared by the reaction of molybdenum pentachloride and o-methylbenzoic acid.The crystal and molecular structures were determined by the X-ray diffrac...The new cluster[Mo_4(μ_3-O)_2O_4Cl_2(o-CH_3C_6H_4COO)_6]has been prepared by the reaction of molybdenum pentachloride and o-methylbenzoic acid.The crystal and molecular structures were determined by the X-ray diffraction method.It crystallizes in the orthorhombic space group Pnna with cell parameters:Mr=1361.6,a=13.792(4), b=17.957(3),c=20.974(9) ,V=5194(2) ~3,Z=4,Dc=1.74/cm^3,F(OOO)=2704,μ(MoK ) =11.0/cm,R=0.074.展开更多
Reaction of dimers of (R) thionophosphine sulfide (R = P - C6H4OMe,SMe ) with Co, (CO), yields the novel hexacobalt cluster [Co'(μ3, -S)2, (CO) 14 (μ4 -μ4- and the trinuclear clusterPSCH,)J 2' In 1, tw0 Co3...Reaction of dimers of (R) thionophosphine sulfide (R = P - C6H4OMe,SMe ) with Co, (CO), yields the novel hexacobalt cluster [Co'(μ3, -S)2, (CO) 14 (μ4 -μ4- and the trinuclear clusterPSCH,)J 2' In 1, tw0 Co3S(C0)7 units linked by a novel phosphido-thio1ato bifunc-tiona1 bridging p'-SPR ligand as backbone.展开更多
HO-PAMAM-2. 5 G-protected lanthanum cluster was studied by Virtual Molecule （VM） software. Molecular dynamics （MD） simulation of the nanocomposite system was performed from the viewpoints of molecular structure an...HO-PAMAM-2. 5 G-protected lanthanum cluster was studied by Virtual Molecule （VM） software. Molecular dynamics （MD） simulation of the nanocomposite system was performed from the viewpoints of molecular structure and energy＇s fluctuation in NVT system. The motivation of this work was to understand the stability and mechanism of the nanocomposite in different proportion. simulation results reveal that The molecular dynamics when the quantity of La in per HO-PAMAM-2.5G amounted to 0 - 60, the radius of gyration of HO-PAMAM-2.5/La nanocomposite is obviously decreased.展开更多
Molecular dynamics simulations are performed to observe the evolutions of 512 and 51262 cage-like water clusters filled with or without a methane molecule immersed in bulk liquid water at 250 K and 230 K. The lifetime...Molecular dynamics simulations are performed to observe the evolutions of 512 and 51262 cage-like water clusters filled with or without a methane molecule immersed in bulk liquid water at 250 K and 230 K. The lifetimes of these clusters are calculated according to their Lindemann index δ (t) using the criteria of δ≥0.07. For both the filled and empty clusters, we find the dynamics of bulk water determines the lifetimes of cage-like water clusters, and that the lifetime of 512 62 cage-like cluster is the same as that of 512 cage-like cluster. Although the methane molecule indeed makes the filled cage-like cluster more stable than the empty one, the empty cage-like cluster still has chance to be long-lived compared with the filled clusters. These observations support the labile cluster hypothesis on the formation mechanisms of gas hydrates.展开更多
Studies on the electronic structure,molecular design,syntheses of some novel series of tetranuclear rare earth complexes in our laboratory have been reviewed.Spin-unrestricted localized INDO method was used to calcula...Studies on the electronic structure,molecular design,syntheses of some novel series of tetranuclear rare earth complexes in our laboratory have been reviewed.Spin-unrestricted localized INDO method was used to calculate the electronic structure and the chemical bonding in the typical rare earth cluster Sc[Sc_6Cl_(12)Co]was discussed.展开更多
The energy-localized CNDO/2 molecular orbitals have been calculated for the cluster anions of [Co<sub>6</sub> （CO）<sub>14</sub>]￣（4-） and [Ni<sub>2</sub>Co<sub>4</sub&...The energy-localized CNDO/2 molecular orbitals have been calculated for the cluster anions of [Co<sub>6</sub> （CO）<sub>14</sub>]￣（4-） and [Ni<sub>2</sub>Co<sub>4</sub> （CO）<sub>14</sub>]￣（2-）in order to get a deeper insight into the nature of their skeletal bonding. The bonding characteristics of these hexanuclear carbonyl cobaltates are described from a localization bonding viewpoint. There are two typical M-CO bondings, one of which is formed by electron donation from the terminal and capping carbonyl ligands into the vacant hybrid orbitals on the metal atoms , leading to formation ofσ（C<sub>t</sub>→Co） and σ（C<sub>b</sub>→{Co<sub>3</sub>}）bonds. The other typical M-CO bonding is back donation of the lone d-electron pairs on the metal atoms into the carbonyl ligands, forming π（Co→C<sub>t</sub>） bonds, σ(Co→{C<sub>b2</sub>}) bonds and π(Co→{C<sub>b4</sub>} ) bonds. It is found that there are no direct metalmetal bondings in the skeletons of these two cluster anions.The delocalization situation of the skeletal bonding electrons is briefly discussed.展开更多
This paper examines the interface development between a single crystalline Ag matrix and core-shell AgnCom nanoclusters that have been deposited with energies varying between 0.25 eV and 1.5 eV per atom using computer...This paper examines the interface development between a single crystalline Ag matrix and core-shell AgnCom nanoclusters that have been deposited with energies varying between 0.25 eV and 1.5 eV per atom using computer modeling techniques. Clusters undergo deformation as a result of the slowing down;they may also become epitaxial with the substrate and maintain their core-shell structure. A detailed analysis of the effects of the cluster-surface interaction is conducted over a realistic size and energy range, and a model is created to show how clusters accumulate. It is discovered that both the silver shells and the cobalt cluster cores exhibit limited epitaxy with the substrate, and that the contact produced is only a few atomic layers thick. The effect is higher for Ag shells than for Co cores, and it is not very energy dependent.展开更多
In this paper, we studied the process of dissociation unimolecular of the evaporation of H+2n+1 hydrogen clusters according to size, using the Rice-Ramsperger-Kassel-Marcus (RRKM) theory. The rate constants k(E) were ...In this paper, we studied the process of dissociation unimolecular of the evaporation of H+2n+1 hydrogen clusters according to size, using the Rice-Ramsperger-Kassel-Marcus (RRKM) theory. The rate constants k(E) were determined with the use of statistical theory of unimolecular reactions using various approximations. In our work, we used the products frequencies instead of transitions frequencies in the calculation of unimolecular dissociation rates obtained by three models RRKM. The agreement between the experimental cross section ratio and calculated rate ratio with direct count approximation seems to be reasonable.展开更多
基金supported by the Strategic Priority Research Program of Chinese Academy of Sciences(XDB0450202)。
文摘Strong Coulombic repulsion in small doubly charged molecular ions usually leads to fragmentation.Some of these ions,such as CO_(2)^(++),could survive and be detected if they are stable or metastable in energetics,but how to produce these observable doubly charged ions is a puzzling issue.Here we investigate CO_(2)^(++)production by electron-impact ionization with a supersonic molecular beam of CO_(2)under different nozzle pressures,using time-of-flight mass spectrometry measurements and ab initio calculations.The mass spectral profile of CO_(2)^(++)varies slightly with the nozzle pressure,implying different mechanisms of the ion production.The calculations indicate that the ground state of CO_(2)^(++)is 3Aʺwith a nonlinear conformation,while the linear conformer is in the first excited state 1Δ_(g).We further suggest that,besides CO_(2)^(++)(1Δ_(g))produced from CO_(2),CO_(2)^(++)(3Aʺ)could be produced by the dissociation of doubly charged dimer(C2O4^(++))in a repulsive triplet state.
基金Project partially supported by the National Key Research and Development Program of China (Grant Nos. 2019YFA0307700)the National Natural Science Foundation of China (Grant Nos. 12004133, 12074143, 12134005, and 11904210)China Postdoctoral Science Foundation (Grant No. 2021M691220)。
文摘Taking an image of their structure and a movie of their dynamics of small quantum systems have always been a dream of physicists and chemists. Laser-induced Coulomb explosion imaging(CEI) provides a great opportunity to make this dream a reality for small molecules or their aggregation — clusters. The method is unique for identifying the atomic locations with angstrom spatial resolution and capturing the structural evolution with a femtosecond time scale, in particular for imaging transient state products. This review summarizes the determination of three-dimensional equilibrium geometry of molecules and molecular cluster system through the reconstruction from the fragments momenta, and also shows that the dissociation dynamics on the complex potential energy surface can be tracked in real-time with the ultrafast CEI(UCEI).Furthermore, the detailed measurement and analysis procedures of the CEI, theoretical methods, exemplary results, and future perspectives of the technique are described.
基金the generous supported by the National Key R&D Program of China(No.2023YFC2413100)the National Natural Science Foundation of China(Nos.22322102,21871042 and 21471028)+1 种基金the Fundamental Research Funds for the Central Universities-Excellent Youth Team Program(No.2412023YQ001)the Natural Science Foundation of Jilin Province(Nos.YDZJ202401550ZYTS,20200201083JC)。
文摘Metal-based antimicrobial materials have been extensively studied and applied over decades.While these materials are notably characterized by their superior antibacterial performance and low propensity to induce drug resistance,critical limitations such as inherent cytotoxicity,poor solubility,and instability in aqueous solution remain significant challenges requiring systematic optimization.In this study,we synthesized water-soluble molecular iron-oxo clusters(MIC)with excellent biosafety and stability of aqueous solution.Our findings demonstrate that MIC exhibits marked therapeutic efficacy in cecal ligation and puncture induced sepsis models,a critical validation given sepsis'etiology as a life-threatening infection mediated systemic inflammatory syndrome.MIC combats bacteria by enhancing humoral immune responsiveness.MIC significantly improved the survival rate,reduced bacterial burden,stabilized body temperature,and modulated cytokine profiles in mice with sepsis.Further investigations revealed that MIC promotes B cells proliferation and oxidative phosphorylation,and mitigates mitochondrial damage and apoptosis in B cells,suggesting its role in modulating cellular metabolism.RNA sequencing analysis demonstrated that MIC exerts its effects by influencing key pathways involved in humoral immunity,inflammatory responses,and metabolic adaptation.These findings establish MIC as a novel therapeutic agent for regulating immune responses in sepsis,providing innovative strategies to improve recovery from this life-threatening condition.
基金Professor Hong Yu at Intelligent Fishery Innovative Team(No.C202109)in School of Information Engineering of Dalian Ocean University for her support of this workfunded by the National Natural Science Foundation of China(No.31800615 and No.21933010)。
文摘Performing cluster analysis on molecular conformation is an important way to find the representative conformation in the molecular dynamics trajectories.Usually,it is a critical step for interpreting complex conformational changes or interaction mechanisms.As one of the density-based clustering algorithms,find density peaks(FDP)is an accurate and reasonable candidate for the molecular conformation clustering.However,facing the rapidly increasing simulation length due to the increase in computing power,the low computing efficiency of FDP limits its application potential.Here we propose a marginal extension to FDP named K-means find density peaks(KFDP)to solve the mass source consuming problem.In KFDP,the points are initially clustered by a high efficiency clustering algorithm,such as K-means.Cluster centers are defined as typical points with a weight which represents the cluster size.Then,the weighted typical points are clustered again by FDP,and then are refined as core,boundary,and redefined halo points.In this way,KFDP has comparable accuracy as FDP but its computational complexity is reduced from O(n^(2))to O(n).We apply and test our KFDP method to the trajectory data of multiple small proteins in terms of torsion angle,secondary structure or contact map.The comparing results with K-means and density-based spatial clustering of applications with noise show the validation of the proposed KFDP.
文摘The sintering process of nanometer size gold clusters is investigated by using molecular dynamics simulation in the frame of embedded atomistic method. Several molecular dynamics simulation techniques are used to observe and describe the evolution of the sintering process. The energy distribution for single cluster is examined and the snapshots of sintering process of two clusters are recorded. The evolution of sintering is also described by plotting the mass center changes with time for each cluster. The variations of kinetic and potential energy during the process of sintering are monitored and measured to analyze the dominant mechanisms of sintering from the energy point of view.
基金Project supported by the National Natural Science Foundation of China(Grant No.11072242)
文摘The effects of the diameters of single-walled carbon nanotubes （SWCNTs） （7.83A to 27.40A） and temperature （20 K-45 K） on the equilibrium structure of an argon cluster are systematically studied by molecular dynamics simulation with consideration of the SWCNTs to be fixed. Since the diameters of SWCNTs with different chiralities increase when temperature is fixed at 20 K, the equilibrium structures of the argon cluster transform from monoatomic chains to helical and then to multishell coaxial cylinders. Chirality has almost no noticeable influence on these cylindrosymmetric structures. The effects of temperature and a non-equilibrium sudden heating process on the structures of argon clusters in SWCNTs are also studied by molecular dynamics simulation.
文摘Structure-based virtual screening（molecular docking）is now one of the most pragmatic techniques to leverage target structure for ligand discovery.Accurate binding pose prediction is critical to molecular docking.Here,we describe a general strategy to improve the accuracy of docking pose prediction by implementing the structural descriptor-based fltering and KGS-penalty function-based conformational clustering in an unbiased manner.We assessed our method against 150 high-quality protein–ligand complex structures.Surprisingly,such simple components are suffcient to improve the accuracy of docking pose prediction.The success rate of predicting near-native docking pose increased from 53%of the targets to 78%.We expect that our strategy may have general usage in improving currently available molecular docking programs.
文摘The energy-localized CNDO/2 molecular orbitals have been calculated for the cluster anions of [Co_6 (CO)_(14)]￣(4-) and [Ni_2Co_4 (CO)_(14)]￣(2-)in order to get a deeper insight into the nature of their skeletal bonding. The bonding characteristics of these hexanuclear carbonyl cobaltates are described from a localization bonding viewpoint. There are two typical M-CO bondings, one of which is formed by electron donation from the terminal and capping carbonyl ligands into the vacant hybrid orbitals on the metal atoms , leading to formation ofσ(C_t→Co) and σ(C_b→{Co_3})bonds. The other typical M-CO bonding is back donation of the lone d-electron pairs on the metal atoms into the carbonyl ligands, forming π(Co→C_t) bonds, σ(Co→{C_(b2)}) bonds and π(Co→{C_(b4)} ) bonds. It is found that there are no direct metalmetal bondings in the skeletons of these two cluster anions.The delocalization situation of the skeletal bonding electrons is briefly discussed.
基金Supported by Special Foundation for State Major Basic Research Program of China (Grant No. G2006CB605103)the Scientific Research Foundation for the Returned Overseas Chinese Scholars,State Education Ministry,China and the Fundamental Research Funds for the Central University (Grant No. 90405001)
文摘Three coalescence processes of Cu57-Cu57, Cu57-Cu58, and Cu5s Cu58 clusters at 300 K are investigated by employing molecular dynamics simulations. According to the evolutions of mean square displacement and local atom packing, the coalescence process can be separated into three stages including an approaching stage, a coalescing stage, and a coalesced stage. The simulations show that the coalescence processes and the formed products are sensitive to the respective initial structures of, and the relative configuration between, the two coalescing icosahedron-based clusters.
文摘The melting and freezing processes of CUN （N =180, 256, 360, 408, 500, 628 and 736） nanoclnsters are simulated by using micro-canonical molecular dynamics simulation technique, The potential energies and the heat capacities as a function of temperature are obtained. The results reveal that the melting and freezing points increase almost linearly with the atom number in the cluster increasing. All copper nanoclusters have negative heat capacity around the melting and freezing points, and hysteresis effect in the melting/freezing transition is derived in CUN nanoclusters for the first time.
文摘The localized molecular orbitals and energy levels for [Co_6 (μ_3-S)_8 (PH_3)_6]￣(n+)(n=0, 1) as model molecules of the electron-rich [Co_6 (μ_3-S)_8 (PPh_3)_6]￣(n+) (n=0,1) cluster compounds have been calculated by using Edmiston-Ruedenberg energy localization scheme under the spin-unrestricted CNDO/2 approximation. It is shown that the cluster skeletons of these two isostructural molecules consist of the edge-localized two-centered two-electron (Co-S) bonds plus a pair of the skeleton electrons delocalized on the whole cluster core,leading an extra stability of the cluster core.The one-electron oxidation for the neutral molecule gives rise to a one-electron σ (Co-Co) bond.which further resonates among the three diagonal lines of the {Co_6} octahedron. The comparison between [Co_6 (μ_3-S)_8(PPh_3)_6] and [Co_6(μ_3-CO)_8(CO)_6]￣(4-) indicates that the latter possesses face-localized bridging-bonds which are further delocalized on the whole surface of the cluster octahedron by the back-donation bonds from the lone electron pairs on the Co atoms to the capping carbonyl CO ligands. The structural features of the series of the [Co6(μ_3-X)_8L_6]￣(n+)(X =S, Se; L=PPh_3,PEt_3, CO;n=0, 1) cluster compounds are briefly rationalized on the basis of the localization description as well.
基金Work supported by the National Natural Science Foundation of China(NNSFC)
文摘The new cluster[Mo_4(μ_3-O)_2O_4Cl_2(o-CH_3C_6H_4COO)_6]has been prepared by the reaction of molybdenum pentachloride and o-methylbenzoic acid.The crystal and molecular structures were determined by the X-ray diffraction method.It crystallizes in the orthorhombic space group Pnna with cell parameters:Mr=1361.6,a=13.792(4), b=17.957(3),c=20.974(9) ,V=5194(2) ~3,Z=4,Dc=1.74/cm^3,F(OOO)=2704,μ(MoK ) =11.0/cm,R=0.074.
文摘Reaction of dimers of (R) thionophosphine sulfide (R = P - C6H4OMe,SMe ) with Co, (CO), yields the novel hexacobalt cluster [Co'(μ3, -S)2, (CO) 14 (μ4 -μ4- and the trinuclear clusterPSCH,)J 2' In 1, tw0 Co3S(C0)7 units linked by a novel phosphido-thio1ato bifunc-tiona1 bridging p'-SPR ligand as backbone.
文摘HO-PAMAM-2. 5 G-protected lanthanum cluster was studied by Virtual Molecule （VM） software. Molecular dynamics （MD） simulation of the nanocomposite system was performed from the viewpoints of molecular structure and energy＇s fluctuation in NVT system. The motivation of this work was to understand the stability and mechanism of the nanocomposite in different proportion. simulation results reveal that The molecular dynamics when the quantity of La in per HO-PAMAM-2.5G amounted to 0 - 60, the radius of gyration of HO-PAMAM-2.5/La nanocomposite is obviously decreased.
基金supported by the National Natural Science Foundation of China(Grant No.40102005 and No.49725205).
文摘Molecular dynamics simulations are performed to observe the evolutions of 512 and 51262 cage-like water clusters filled with or without a methane molecule immersed in bulk liquid water at 250 K and 230 K. The lifetimes of these clusters are calculated according to their Lindemann index δ (t) using the criteria of δ≥0.07. For both the filled and empty clusters, we find the dynamics of bulk water determines the lifetimes of cage-like water clusters, and that the lifetime of 512 62 cage-like cluster is the same as that of 512 cage-like cluster. Although the methane molecule indeed makes the filled cage-like cluster more stable than the empty one, the empty cage-like cluster still has chance to be long-lived compared with the filled clusters. These observations support the labile cluster hypothesis on the formation mechanisms of gas hydrates.
基金Project supported by The National Natural Science Foundation of China and Science and Technology Foundation of State Education Commision of China
文摘Studies on the electronic structure,molecular design,syntheses of some novel series of tetranuclear rare earth complexes in our laboratory have been reviewed.Spin-unrestricted localized INDO method was used to calculate the electronic structure and the chemical bonding in the typical rare earth cluster Sc[Sc_6Cl_(12)Co]was discussed.
文摘The energy-localized CNDO/2 molecular orbitals have been calculated for the cluster anions of [Co<sub>6</sub> （CO）<sub>14</sub>]￣（4-） and [Ni<sub>2</sub>Co<sub>4</sub> （CO）<sub>14</sub>]￣（2-）in order to get a deeper insight into the nature of their skeletal bonding. The bonding characteristics of these hexanuclear carbonyl cobaltates are described from a localization bonding viewpoint. There are two typical M-CO bondings, one of which is formed by electron donation from the terminal and capping carbonyl ligands into the vacant hybrid orbitals on the metal atoms , leading to formation ofσ（C<sub>t</sub>→Co） and σ（C<sub>b</sub>→{Co<sub>3</sub>}）bonds. The other typical M-CO bonding is back donation of the lone d-electron pairs on the metal atoms into the carbonyl ligands, forming π（Co→C<sub>t</sub>） bonds, σ(Co→{C<sub>b2</sub>}) bonds and π(Co→{C<sub>b4</sub>} ) bonds. It is found that there are no direct metalmetal bondings in the skeletons of these two cluster anions.The delocalization situation of the skeletal bonding electrons is briefly discussed.
文摘This paper examines the interface development between a single crystalline Ag matrix and core-shell AgnCom nanoclusters that have been deposited with energies varying between 0.25 eV and 1.5 eV per atom using computer modeling techniques. Clusters undergo deformation as a result of the slowing down;they may also become epitaxial with the substrate and maintain their core-shell structure. A detailed analysis of the effects of the cluster-surface interaction is conducted over a realistic size and energy range, and a model is created to show how clusters accumulate. It is discovered that both the silver shells and the cobalt cluster cores exhibit limited epitaxy with the substrate, and that the contact produced is only a few atomic layers thick. The effect is higher for Ag shells than for Co cores, and it is not very energy dependent.
文摘In this paper, we studied the process of dissociation unimolecular of the evaporation of H+2n+1 hydrogen clusters according to size, using the Rice-Ramsperger-Kassel-Marcus (RRKM) theory. The rate constants k(E) were determined with the use of statistical theory of unimolecular reactions using various approximations. In our work, we used the products frequencies instead of transitions frequencies in the calculation of unimolecular dissociation rates obtained by three models RRKM. The agreement between the experimental cross section ratio and calculated rate ratio with direct count approximation seems to be reasonable.
