Citation:
ZHANG Ning, LI Wei-Zhong, CHEN Cong, ZUO Jian-Guo. Evaluation of the Application of Hydrogen Bonding Criteria to DMSO Aqueous Solution[J]. Acta Physico-Chimica Sinica,
;2013, 29(09): 1891-1899.
doi:
10.3866/PKU.WHXB201307121
-
Geometric and energetic criteria have been used to analyze the hydrogen bonding statistics and dynamics of aqueous solutions of dimethylsulfoxide (DMSO) of different concentrations using molecular dynamics simulation. These two hydrogen bonding criteria both reproduced the changes of the hydrogen bonding properties of the solutions with increasing concentration. Comparison of the results obtained using the two criteria revealed that the geometric criterion cannot exclude pairs that have weak pair interaction energy. As a result, the number of hydrogen bonds determined by the geometric criterion is larger than that by the energetic criterion. The energetic criterion has less ability to distinguish pairs that have improper relative orientation compared with the geometric criterion. However, the number of deficient hydrogen bonds determined by the energetic criterion is smaller than that by the geometric one. This deficiency of the energetic criterion results in longer hydrogen bonding lifetime than that of the geometric criterion. Thus, an extended criterion involving both geometric and energetic conditions is recommended for hydrogen bonding analysis.
-
-
-
[1]
(1) Lide, D. R. CRC Handbook of Chemistry and Physics, 85th ed.;CRC Press: Boca Raton, FL, 2005.
-
[2]
(2) Hu, T. J.; Zhou, G. Y.; Gao, C.; Hua, Z. Z. Chin. J. Chem. Phys.2005, 18 (5), 845. [胡桐记,周国燕,高才,华泽钊. 化学物理学报, 2005, 18 (5), 845.]
-
[3]
(3) Soper, A.; Luzar, A. J. Chem. Phys. 1992, 97 (2), 1320. doi: 10.1063/1.463259
-
[4]
(4) Vishnyakov, A.; Lyubartsev, A. P.; Laaksonen, A. J. Phys. Chem. A 2001, 105 (10), 1702. doi: 10.1021/jp0007336
-
[5]
(5) Kirchner, B.; Hutter, J. Chem. Phys. Lett. 2002, 364 (5-6),497. doi: 10.1016/S0009-2614(02)01377-5
-
[6]
(6) Lei, Y.; Li, H.; Han, S. Chem. Phys. Lett. 2003, 380 (5-6),542. doi: 10.1016/j.cplett.2003.09.064
-
[7]
(7) Geerke, D. P.; Oostenbrink, C.; van der Vegt, N. F. A.; vanGunsteren, W. F. J. Phys. Chem. B 2004, 108 (4), 1436. doi: 10.1021/jp035034i
-
[8]
(8) Mancera, R. L.; Chalaris, M.; Refson, K.; Samios, J. Phys. Chem. Chem. Phys. 2004, 6 (1), 94. doi: 10.1039/b308989d
-
[9]
(9) Mancera, R. L.; Chalaris, M.; Samios, J. J. Mol. Liq. 2004, 110 (1-3), 147. doi: 10.1016/j.molliq.2003.09.010
-
[10]
(10) Zhang, X.; Zhang, Q.; Zhao, D. X. Acta Phys. -Chim. Sin. 2011,27 (11), 2547. [张霞, 张强, 赵东霞.物理化学学报,2011, 27 (11), 2547.] doi: 10.3866/PKU.WHXB20111107
-
[11]
(11) Chowdhuri, S.; Pattanayak, S. K. Mol. Phys. 2012, 111 (1), 135.
-
[12]
(12) Wong, D. B.; Sokolowsky, K. P.; El-Barghouthi, M. I.; Fenn, E.E.; Giammanco, C. H.; Sturlaugson, A. L.; Fayer, M. D. J. Phys. Chem. B 2012, 116 (18), 5479. doi: 10.1021/jp301967e
-
[13]
(13) Chen, C.; Li, W. Z. Acta Phys. -Chim. Sin. 2009, 25 (3), 507.[陈聪,李维仲.物理化学学报, 2009, 25 (3), 507.] doi: 10.3866/PKU.WHXB20090318
-
[14]
(14) Chen, C.; Li, W. Z.; Song, Y. C.; Weng, L. D. Acta Phys. -Chim. Sin. 2011, 27 (6), 1372. [陈聪,李维仲, 宋永臣,翁林岽. 物理化学学报, 2011, 27 (6), 1372.] doi: 10.3866/PKU.WHXB20110626
-
[15]
(15) Zhang, N.; Li, W.; Chen, C.; Zuo, J.; Weng, L. Mol. Phys. 2013,111 (7), 939. doi: 10.1080/00268976.2012.760050
-
[16]
(16) Stillinger, F. H.; Rahman, A. J. Chem. Phys. 1972, 57 (3),1281. doi: 10.1063/1.1678388
-
[17]
(17) Bako, I.; Megyes, T.; Balint, S.; Chihaia, V.; Bellissent-Funel,M. C.; Krienke, H.; Kopf, A.; Suh, S. H. J. Chem. Phys. 2010,132 (1), 014506. doi: 10.1063/1.3268626
-
[18]
(18) Swiatla-Wojcik, D. Chem. Phys. 2007, 342 (1-3), 260. doi: 10.1016/j.chemphys.2007.10.009
-
[19]
(19) Phillips, J. C.; Braun, R.; Wang, W.; Gumbart, J.; Tajkhorshid,E.; Villa, E.; Chipot, C.; Skeel, R. D.; Kalé, L.; Schulten, K.J. Comput. Chem. 2005, 26 (16), 1781.
-
[20]
(20) Strader, M. L.; Feller, S. E. J. Phys. Chem . A 2002, 106 (6),1074. doi: 10.1021/jp013658n
-
[21]
(21) Berendsen, H. J. C.; Grigera, J. R.; Straatsma, T. P. J. Phys. Chem. 1987, 91 (24), 6269. doi: 10.1021/j100308a038
-
[22]
(22) Jorgensen, W. L.; Chandrasekhar, J.; Madura, J. D.; Impey, R.W.; Klein, M. L. J. Chem. Phys. 1983, 79 (2), 926. doi: 10.1063/1.445869
-
[23]
(23) Jorgensen, W. L.; Madura, J. D. Mol. Phys. 1985, 56 (6),1381. doi: 10.1080/00268978500103111
-
[24]
(24) Martyna, G. J.; Tobias, D. J.; Klein, M. L. J. Chem. Phys. 1994,101 (5), 4177. doi: 10.1063/1.467468
-
[25]
(25) Darden, T.; York, D.; Pedersen, L. J. Chem. Phys. 1993, 98 (12),10089. doi: 10.1063/1.464397
-
[26]
(26) Chowdhuri, S.; Chandra, A. Phys. Rev. E 2002, 66 (4),041203. doi: 10.1103/PhysRevE.66.041203
-
[27]
(27) Guardia, E.; Marti, J.; Padro, J. A.; Saiz, L.; Komolkin, A. V. J. Mol. Liq. 2002, 96 -97, 3.
-
[28]
(28) Chelli, R.; Procacci, P.; Cardini, G.; Califano, S. Phys. Chem. Chem. Phys. 1999, 1 (5), 879. doi: 10.1039/a808957d
-
[29]
(29) Luzar, A.; Chandler, D. J. Chem. Phys. 1993, 98 (10), 8160.doi: 10.1063/1.464521
-
[30]
(30) Kalinichev, A. G.; rbaty, Y. E.; Okhulkov, A. V. J. Mol. Liq.1999, 82 (1-2), 57. doi: 10.1016/S0167-7322(99)00042-2
-
[31]
(31) Meng, E. C.; Kollman, P. A. J. Phys. Chem. 1996, 100 (27),11460. doi: 10.1021/jp9536209
-
[32]
(32) Towey, J. J.; Soper, A. K.; Dougan, L. J. Phys. Chem. B 2012,116 (47), 13898. doi: 10.1021/jp3093034
-
[33]
(33) Borin, I. A.; Skaf, M. S. J. Chem. Phys. 1999, 110 (13),6412. doi: 10.1063/1.478544
-
[34]
(34) Vaisman, I. I.; Berkowitz, M. L. J. Am. Chem. Soc. 1992, 114 (20), 7889. doi: 10.1021/ja00046a038
-
[35]
(35) Rapaport, D. C. Mol. Phys. 1983, 50 (5), 1151. doi: 10.1080/00268978300102931
-
[36]
(36) Elola, M. D.; Ladanyi, B. M. J. Chem. Phys. 2006, 125 (18),184506. doi: 10.1063/1.2364896
-
[37]
(37) Skarmoutsos, I.; Guardia, E.; Samios, J. J. Chem. Phys. 2010,133 (1), 014504. doi: 10.1063/1.3449142
-
[38]
(38) Soper, A. K.; Luzar, A. J. Phys. Chem. 1996, 100 (4), 1357. doi: 10.1021/jp951783r
-
[1]
-
-
-
[1]
Congying Lu , Fei Zhong , Zhenyu Yuan , Shuaibing Li , Jiayao Li , Jiewen Liu , Xianyang Hu , Liqun Sun , Rui Li , Meijuan Hu . Experimental Improvement of Surfactant Interface Chemistry: An Integrated Design for the Fusion of Experiment and Simulation. University Chemistry, 2024, 39(3): 283-293. doi: 10.3866/PKU.DXHX202308097
-
[2]
Zhi Zhou , Yu-E Lian , Yuqing Li , Hui Gao , Wei Yi . New Insights into the Molecular Mechanism Behind Clinical Tragedies of “Cephalosporin with Alcohol”. University Chemistry, 2025, 40(3): 42-51. doi: 10.12461/PKU.DXHX202403104
-
[3]
Zhenming Xu , Yibo Wang , Zhenhui Liu , Duo Chen , Mingbo Zheng , Laifa Shen . Experimental Design of Computational Materials Science and Computational Chemistry Courses Based on the Bohrium Scientific Computing Cloud Platform. University Chemistry, 2025, 40(3): 36-41. doi: 10.12461/PKU.DXHX202403096
-
[4]
Yinglian LI , Chengcheng ZHANG , Xinyu ZHANG , Xinyi WANG . Spin crossover in [Co(pytpy)2]2+ complexes modified by organosulfonate anions. Chinese Journal of Inorganic Chemistry, 2024, 40(6): 1162-1172. doi: 10.11862/CJIC.20240087
-
[5]
Huiying Xu , Minghui Liang , Zhi Zhou , Hui Gao , Wei Yi . Application of Quantum Chemistry Computation and Visual Analysis in Teaching of Weak Interactions. University Chemistry, 2025, 40(3): 199-205. doi: 10.12461/PKU.DXHX202407011
-
[6]
Yanfen PENG , Xinyue WANG , Tianbao LIU , Xiaoshuo WU , Yujing WEI . Syntheses and luminescence of four Cd(Ⅱ)/Zn(Ⅱ) complexes constructed by 1,3‐bis(4H‐1,2,4‐triazole)benzene. Chinese Journal of Inorganic Chemistry, 2025, 41(7): 1416-1426. doi: 10.11862/CJIC.20250018
-
[7]
Xue Wu , Yupeng Liu , Bingzhe Wang , Lingyun Li , Zhenjian Li , Qingcheng Wang , Quansheng Cheng , Guichuan Xing , Songnan Qu . Rationally assembling different surface functionalized carbon dots for enhanced near-infrared tumor photothermal therapy. Acta Physico-Chimica Sinica, 2025, 41(9): 100109-0. doi: 10.1016/j.actphy.2025.100109
-
[8]
Shule Liu . Application of SPC/E Water Model in Molecular Dynamics Teaching Experiments. University Chemistry, 2024, 39(4): 338-342. doi: 10.3866/PKU.DXHX202310029
-
[9]
Shanghua Li , Malin Li , Xiwen Chi , Xin Yin , Zhaodi Luo , Jihong Yu . High-Stable Aqueous Zinc Metal Anodes Enabled by an Oriented ZnQ Zeolite Protective Layer with Facile Ion Migration Kinetics. Acta Physico-Chimica Sinica, 2025, 41(1): 100003-0. doi: 10.3866/PKU.WHXB202309003
-
[10]
Yaling Chen . Basic Theory and Competitive Exam Analysis of Dynamic Isotope Effect. University Chemistry, 2024, 39(8): 403-410. doi: 10.3866/PKU.DXHX202311093
-
[11]
Jiayu Gu , Siqi Wang , Jun Ling . Kinetics of Living Copolymerization: A Brief Discussion. University Chemistry, 2025, 40(4): 100-107. doi: 10.12461/PKU.DXHX202406012
-
[12]
Yuanyuan Ping , Wangqing Kong . 光催化碳氢键官能团化合成1-苯基-1,2-乙二醇. University Chemistry, 2025, 40(6): 238-247. doi: 10.12461/PKU.DXHX202408092
-
[13]
Jinfu Ma , Hui Lu , Jiandong Wu , Zhongli Zou . Teaching Design of Electrochemical Principles Course Based on “Cognitive Laws”: Kinetics of Electron Transfer Steps. University Chemistry, 2024, 39(3): 174-177. doi: 10.3866/PKU.DXHX202309052
-
[14]
Yeyun Zhang , Ling Fan , Yanmei Wang , Zhenfeng Shang . Development and Application of Kinetic Reaction Flasks in Physical Chemistry Experimental Teaching. University Chemistry, 2024, 39(4): 100-106. doi: 10.3866/PKU.DXHX202308044
-
[15]
Jiageng Li , Putrama . 数值积分耦合非线性最小二乘法一步确定反应动力学参数. University Chemistry, 2025, 40(6): 364-370. doi: 10.12461/PKU.DXHX202407098
-
[16]
Ruonan Li , Shijie Liang , Yunhua Xu , Cuifen Zhang , Zheng Tang , Baiqiao Liu , Weiwei Li . Chlorine-Substituted Double-Cable Conjugated Polymers with Near-Infrared Absorption for Low Energy Loss Single-Component Organic Solar Cells. Acta Physico-Chimica Sinica, 2024, 40(8): 2307037-0. doi: 10.3866/PKU.WHXB202307037
-
[17]
Xuzhen Wang , Xinkui Wang , Dongxu Tian , Wei Liu . Enhancing the Comprehensive Quality and Innovation Abilities of Graduate Students through a “Student-Centered, Dual Integration and Dual Drive” Teaching Model: A Case Study in the Course of Chemical Reaction Kinetics. University Chemistry, 2024, 39(6): 160-165. doi: 10.3866/PKU.DXHX202401074
-
[18]
Dexin Tan , Limin Liang , Baoyi Lv , Huiwen Guan , Haicheng Chen , Yanli Wang . Exploring Reverse Teaching Practices in Physical Chemistry Experiment Courses: A Case Study on Chemical Reaction Kinetics. University Chemistry, 2024, 39(11): 79-86. doi: 10.12461/PKU.DXHX202403048
-
[19]
Jiajie Cai , Chang Cheng , Bowen Liu , Jianjun Zhang , Chuanjia Jiang , Bei Cheng . CdS/DBTSO-BDTO S-scheme photocatalyst for H2 production and its charge transfer dynamics. Acta Physico-Chimica Sinica, 2025, 41(8): 100084-0. doi: 10.1016/j.actphy.2025.100084
-
[20]
Jichao XU , Ming HU , Xichang CHEN , Chunhui WANG , Leichen WANG , Lingyi ZHOU , Xing HE , Xiamin CHENG , Su JING . Construction and hydrogen peroxide-activated chemodynamic activity of ferrocene?benzoselenadiazole conjugate. Chinese Journal of Inorganic Chemistry, 2025, 41(8): 1495-1504. doi: 10.11862/CJIC.20250144
-
[1]
Metrics
- PDF Downloads(646)
- Abstract views(1085)
- HTML views(35)