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
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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.
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-
[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
-
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