Pub Date : 2025-07-10Epub Date: 2025-06-30DOI: 10.1021/acs.jpca.5c01773
Xin-Meng Liu, Dong-Xia Zhao, Zhong-Zhi Yang
Noncovalent interactions and covalent bonds can be distinguished via quantum chemical topology analysis and molecular face theory, which are based on the potential acting on one electron in a molecule or molecular system (PAEM). A covalent bond forms when a PAEM bond critical point (BCP) occurs on the line connecting two atoms and when their molecular faces contact or fuse together, whereas a noncovalent interaction occurs between two adjacent atoms or chemical species when their molecular faces remain separate. The force acting on one electron within a molecule, which starts at infinity and ends at the BCP, forms nonoverlapping boundary surfaces that partition a molecule into distinct atomic regions. This is demonstrated with the following example reactions: H + H → H2, H + X → HX (X = F, Cl, Br, I), O (1D) + H2 → H2O, and S (1D) + H2 → H2S. The exploration of the physical quantities at PAEM critical points, such as the eigenvalues of the Hessian matrix, ellipticity, and electron interflow frequency, reveals their changing trends during the transition from a noncovalent interaction to a covalent bond or vice versa. These changes can help predict chemical bond formation or breakage, providing insight into chemical bonding.
非共价相互作用和共价键可以通过量子化学拓扑分析和分子面理论来区分,它们是基于作用于分子或分子系统中单个电子的势。当PAEM键临界点(BCP)出现在两个原子的连接线上,当它们的分子面接触或融合在一起时,形成共价键,而当两个相邻的原子或化学物质的分子面保持分离时,它们之间发生非共价相互作用。作用在分子内一个电子上的力,从无穷远处开始,在BCP处结束,形成不重叠的边界表面,将分子划分为不同的原子区域。下面的例子说明了这一点:H + H→H2, H + X→HX (X = F, Cl, Br, I), O (1D) + H2→H2O和S (1D) + H2→H2S。对PAEM临界点的物理量,如Hessian矩阵的特征值、椭圆度和电子互流频率的探索,揭示了它们在从非共价相互作用到共价键或反之亦然的转变过程中的变化趋势。这些变化可以帮助预测化学键的形成或破坏,从而深入了解化学键。
{"title":"Transition from Noncovalent Interaction to Covalent Bond Based on One-Electron Potential, Quantum Chemical Topology, and Molecular Face Theory.","authors":"Xin-Meng Liu, Dong-Xia Zhao, Zhong-Zhi Yang","doi":"10.1021/acs.jpca.5c01773","DOIUrl":"10.1021/acs.jpca.5c01773","url":null,"abstract":"<p><p>Noncovalent interactions and covalent bonds can be distinguished via quantum chemical topology analysis and molecular face theory, which are based on the potential acting on one electron in a molecule or molecular system (PAEM). A covalent bond forms when a PAEM bond critical point (BCP) occurs on the line connecting two atoms and when their molecular faces contact or fuse together, whereas a noncovalent interaction occurs between two adjacent atoms or chemical species when their molecular faces remain separate. The force acting on one electron within a molecule, which starts at infinity and ends at the BCP, forms nonoverlapping boundary surfaces that partition a molecule into distinct atomic regions. This is demonstrated with the following example reactions: H + H → H<sub>2</sub>, H + <i>X</i> → H<i>X</i> (<i>X</i> = F, Cl, Br, I), O (<sup>1</sup><i>D</i>) + H<sub>2</sub> → H<sub>2</sub>O, and S (<sup>1</sup><i>D</i>) + H<sub>2</sub> → H<sub>2</sub>S. The exploration of the physical quantities at PAEM critical points, such as the eigenvalues of the Hessian matrix, ellipticity, and electron interflow frequency, reveals their changing trends during the transition from a noncovalent interaction to a covalent bond or vice versa. These changes can help predict chemical bond formation or breakage, providing insight into chemical bonding.</p>","PeriodicalId":59,"journal":{"name":"The Journal of Physical Chemistry A","volume":" ","pages":"6107-6120"},"PeriodicalIF":2.7,"publicationDate":"2025-07-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144525518","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-07-10Epub Date: 2025-06-30DOI: 10.1021/acs.jpca.5c02187
Rui-Ping Huo, Xiang Zhang, Kai-Xin Xie, Cai-Feng Zhang, Meng-Yao Li
The mechanistic details of the DABCO-catalyzed diastereoselective cyclization between β-alkyl nitroolefins and alkylidene malononitriles were elucidated by using dispersion-corrected density functional theory (DFT-D3) calculations at the M06-2X/6-311G(d,p) level with SMD solvation (dichloromethane). The reaction proceeds through four consecutive steps: (i) deprotonation and Michael addition; (ii) 1,3-proton transfer; (iii) Pinner-type cyclization; and (iv) ring contraction. Our computational results demonstrate DABCO's dual catalytic role in both proton abstraction and proton shuttle mechanisms, rationalizing the observed diastereoselectivity. The rate-determining step (ring contraction) exhibits a moderate barrier of 24.9 kcal/mol, consistent with experimental conditions, and the exclusion of alternative pathways (ΔG‡ > 70 kcal/mol) confirms the mechanistic preference. This study provides fundamental insights into stereochemical control and establishes a theoretical framework for designing related organocatalytic transformations.
{"title":"Exploring the Mechanism of DABCO-Catalyzed Diastereoselective Cyclization for the Synthesis of Azetidine Nitrones.","authors":"Rui-Ping Huo, Xiang Zhang, Kai-Xin Xie, Cai-Feng Zhang, Meng-Yao Li","doi":"10.1021/acs.jpca.5c02187","DOIUrl":"10.1021/acs.jpca.5c02187","url":null,"abstract":"<p><p>The mechanistic details of the DABCO-catalyzed diastereoselective cyclization between β-alkyl nitroolefins and alkylidene malononitriles were elucidated by using dispersion-corrected density functional theory (DFT-D3) calculations at the M06-2X/6-311G(d,p) level with SMD solvation (dichloromethane). The reaction proceeds through four consecutive steps: (i) deprotonation and Michael addition; (ii) 1,3-proton transfer; (iii) Pinner-type cyclization; and (iv) ring contraction. Our computational results demonstrate DABCO's dual catalytic role in both proton abstraction and proton shuttle mechanisms, rationalizing the observed diastereoselectivity. The rate-determining step (ring contraction) exhibits a moderate barrier of 24.9 kcal/mol, consistent with experimental conditions, and the exclusion of alternative pathways (Δ<i>G</i><sup>‡</sup> > 70 kcal/mol) confirms the mechanistic preference. This study provides fundamental insights into stereochemical control and establishes a theoretical framework for designing related organocatalytic transformations.</p>","PeriodicalId":59,"journal":{"name":"The Journal of Physical Chemistry A","volume":" ","pages":"5983-5992"},"PeriodicalIF":2.7,"publicationDate":"2025-07-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144525512","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"","authors":"Garima S. Dobhal, and , Tiffany R. Walsh*, ","doi":"","DOIUrl":"","url":null,"abstract":"","PeriodicalId":59,"journal":{"name":"The Journal of Physical Chemistry A","volume":"129 27","pages":"XXX-XXX 12260–12268"},"PeriodicalIF":2.7,"publicationDate":"2025-07-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://pubs.acs.org/doi/pdf/10.1021/acs.jpca.5c01797","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144587082","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Nia Pollard, A’Laura C. Hines and Andre Z. Clayborne*,
{"title":"","authors":"Nia Pollard, A’Laura C. Hines and Andre Z. Clayborne*, ","doi":"","DOIUrl":"","url":null,"abstract":"","PeriodicalId":59,"journal":{"name":"The Journal of Physical Chemistry A","volume":"129 27","pages":"XXX-XXX 12260–12268"},"PeriodicalIF":2.7,"publicationDate":"2025-07-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://pubs.acs.org/doi/pdf/10.1021/acs.jpca.5c01404","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144587151","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Gas-phase photoelectron spectroscopy (PES) was performed on the mass-selected beams of [Au25(PET)18]- and [Au38(PET)24]- (PET = SC2H4Ph) desorbed by a matrix-assisted laser desorption/ionization (MALDI) process. The PE spectrum of [Au25(PET)18]- was consistent with that generated by the electrospray ionization (ESI) method, indicating the compatibility of MALDI and ESI for the ionization method. The energy gap between the highest occupied molecular orbital (HOMO) and the lowest unoccupied molecular orbital (LUMO) of [Au38(PET)24]0 was estimated to be 0.78 ± 0.06 eV from the energy difference between the peaks at the lowest and second lowest electron binding energies. The HOMO-LUMO gap was smaller than those determined in solution by voltammetry (1.0 eV) and optical absorption spectroscopy (0.92 eV). Density functional theory calculations suggested that the difference in the HOMO-LUMO gap was due to the elongation of the bi-icosahedral Au23 core of [Au38(PET)24]- as compared to that in [Au38(PET)24]0 by the accommodation of an excess electron into an antibonding orbital.
{"title":"HOMO-LUMO Gap of [Au<sub>38</sub>(SC<sub>2</sub>H<sub>4</sub>Ph)<sub>24</sub>]<sup>0</sup> Estimated by Photoelectron Spectroscopy on Its MALDI-Generated Anion.","authors":"Komei Akazawa, Shun Ito, Yuya Hamasaki, Kiichirou Koyasu, Tatsuya Tsukuda","doi":"10.1021/acs.jpca.5c03160","DOIUrl":"10.1021/acs.jpca.5c03160","url":null,"abstract":"<p><p>Gas-phase photoelectron spectroscopy (PES) was performed on the mass-selected beams of [Au<sub>25</sub>(PET)<sub>18</sub>]<sup>-</sup> and [Au<sub>38</sub>(PET)<sub>24</sub>]<sup>-</sup> (PET = SC<sub>2</sub>H<sub>4</sub>Ph) desorbed by a matrix-assisted laser desorption/ionization (MALDI) process. The PE spectrum of [Au<sub>25</sub>(PET)<sub>18</sub>]<sup>-</sup> was consistent with that generated by the electrospray ionization (ESI) method, indicating the compatibility of MALDI and ESI for the ionization method. The energy gap between the highest occupied molecular orbital (HOMO) and the lowest unoccupied molecular orbital (LUMO) of [Au<sub>38</sub>(PET)<sub>24</sub>]<sup>0</sup> was estimated to be 0.78 ± 0.06 eV from the energy difference between the peaks at the lowest and second lowest electron binding energies. The HOMO-LUMO gap was smaller than those determined in solution by voltammetry (1.0 eV) and optical absorption spectroscopy (0.92 eV). Density functional theory calculations suggested that the difference in the HOMO-LUMO gap was due to the elongation of the bi-icosahedral Au<sub>23</sub> core of [Au<sub>38</sub>(PET)<sub>24</sub>]<sup>-</sup> as compared to that in [Au<sub>38</sub>(PET)<sub>24</sub>]<sup>0</sup> by the accommodation of an excess electron into an antibonding orbital.</p>","PeriodicalId":59,"journal":{"name":"The Journal of Physical Chemistry A","volume":" ","pages":"6043-6048"},"PeriodicalIF":2.7,"publicationDate":"2025-07-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144482505","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2025-07-10Epub Date: 2025-06-27DOI: 10.1021/acs.jpca.5c02881
Anton S Pozdeev, Hyun Wook Choi, Wei-Jia Chen, Lai-Sheng Wang, Ivan A Popov
Photoelectron spectroscopy and theoretical calculations are combined to elucidate the structures and chemical bonding of small boron clusters doped with a copper atom, CuBx- (x = 4-6). Relatively complex spectral features are observed and are interpreted by comparison with the theoretical results. Predicted global minimum structures of CuBx- (x = 4-6) evince that the Cu atom binds to an apex B atom in each cluster and does not significantly alter the planar boron framework of the corresponding Bx- clusters. Multielectronic transitions (shakeup processes) are observed in all three systems, a manifestation of strong electron correlation effects. Chemical bonding analyses show that the copper atom preferentially binds to the apex sites with the highest electron localization to form a Cu-B covalent bond. The structures and bonding of CuBx- (x = 4-6) are compared with those of the bare Bx- and the Cu2Bx- clusters, providing new insights into the structural and electronic evolution of Cu-doped boron clusters and the transition from Cu-B covalent bonding to ionic bonding.
{"title":"Structural Evolution of Boron Clusters upon Copper Doping in CuB<sub><i>x</i></sub><sup>-</sup> (<i>x</i> = 4-6).","authors":"Anton S Pozdeev, Hyun Wook Choi, Wei-Jia Chen, Lai-Sheng Wang, Ivan A Popov","doi":"10.1021/acs.jpca.5c02881","DOIUrl":"10.1021/acs.jpca.5c02881","url":null,"abstract":"<p><p>Photoelectron spectroscopy and theoretical calculations are combined to elucidate the structures and chemical bonding of small boron clusters doped with a copper atom, CuB<sub><i>x</i></sub><sup>-</sup> (<i>x</i> = 4-6). Relatively complex spectral features are observed and are interpreted by comparison with the theoretical results. Predicted global minimum structures of CuB<sub><i>x</i></sub><sup>-</sup> (<i>x</i> = 4-6) evince that the Cu atom binds to an apex B atom in each cluster and does not significantly alter the planar boron framework of the corresponding B<sub><i>x</i></sub><sup>-</sup> clusters. Multielectronic transitions (shakeup processes) are observed in all three systems, a manifestation of strong electron correlation effects. Chemical bonding analyses show that the copper atom preferentially binds to the apex sites with the highest electron localization to form a Cu-B covalent bond. The structures and bonding of CuB<sub><i>x</i></sub><sup>-</sup> (<i>x</i> = 4-6) are compared with those of the bare B<sub><i>x</i></sub><sup>-</sup> and the Cu<sub>2</sub>B<sub><i>x</i></sub><sup>-</sup> clusters, providing new insights into the structural and electronic evolution of Cu-doped boron clusters and the transition from Cu-B covalent bonding to ionic bonding.</p>","PeriodicalId":59,"journal":{"name":"The Journal of Physical Chemistry A","volume":" ","pages":"6024-6033"},"PeriodicalIF":2.7,"publicationDate":"2025-07-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144504223","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}