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Afonin AV, Pavlov DV, Vashchenko AV. Case study of 2-vinyloxypyridine: Quantitative assessment of the intramolecular C H⋯N hydrogen bond energy and its contribution to the one-bond 13C1H coupling constant. J Mol Struct 2019. [DOI: 10.1016/j.molstruc.2018.08.050] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
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2
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Yang F, Wu RZ, Yan CX, Yang X, Zhou DG, Zhou PP. Quantitative relationships between bond lengths, stretching vibrational frequencies, bond force constants, and bond orders in the hydrogen-bonded complexes involving hydrogen halides. Struct Chem 2017. [DOI: 10.1007/s11224-017-1048-2] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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3
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Takeya S, Udachin KA, Moudrakovski IL, Ohmura R, Ripmeester JA. Disorder of Hydrofluorocarbon Molecules Entrapped in the Water Cages of Structure I Clathrate Hydrate. Chemistry 2016; 22:7567-73. [PMID: 27105807 DOI: 10.1002/chem.201600122] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/11/2016] [Indexed: 11/09/2022]
Abstract
Water versus fluorine: Clathrate hydrates encaging hydrofluorocarbons as guests show both isotropic and anisotropic distributions within host water cages, depending on the number of fluorine atoms in the guest molecule; this is caused by changes in intermolecular interactions to host water molecules in the hydrates.
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Affiliation(s)
- Satoshi Takeya
- National Institute of Advanced Industrial, Science and Technology (AIST), Central 5, 1-1-1 Higashi, Tsukuba, 305-8565, Japan.
| | - Konstantin A Udachin
- Steacie Institute for Molecular Sciences, National Research Council of Canada, 100 Sussex Dr., Ottawa, ON, K1A 0R6, Canada
| | - Igor L Moudrakovski
- Steacie Institute for Molecular Sciences, National Research Council of Canada, 100 Sussex Dr., Ottawa, ON, K1A 0R6, Canada.,Max Planck Institute for Solid State Research, Heisenbergstrasse 1, 70569, Stuttgart, Germany
| | - Ryo Ohmura
- Keio University, 3-14-1 Hiyoshi, Kouhoku-ku, Yokohama, 223-0061, Japan
| | - John A Ripmeester
- Steacie Institute for Molecular Sciences, National Research Council of Canada, 100 Sussex Dr., Ottawa, ON, K1A 0R6, Canada.
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Kucherov S, Bureiko S, Denisov G. Anticooperativity of FHF hydrogen bonds in clusters of the type F− × (HF)n, RF × (HF)n and XF × (HF)n, R = alkyl and X = H, Br, Cl, F. J Mol Struct 2016. [DOI: 10.1016/j.molstruc.2015.10.066] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
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5
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Simultaneous interactions of amphoteric halogen in XY (X = Cl, Br and Y = F, Cl, Br) with C and O atoms of CO 2 in ring-shaped CO 2 ·X(Y)·CO 2 complexes. COMPUT THEOR CHEM 2016. [DOI: 10.1016/j.comptc.2015.11.023] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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6
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Melikova S, Rutkowski K, Telkova E, Czarnik-Matusewicz B, Rospenk M, Herrebout W. FTIR and Raman spectra of CH(D)FClCF2OCHF derivatives of enflurane. Experimental and ab initio study. Chem Phys 2015. [DOI: 10.1016/j.chemphys.2015.03.010] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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7
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Jantimapornkij P, Jundee P, Uttamapinant N, Pianwanit S, Karpfen A. AH⋯π hydrogen bonding to acetylene and benzene: The role of intramolecular coupling. COMPUT THEOR CHEM 2012. [DOI: 10.1016/j.comptc.2012.09.005] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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8
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Zhou PP, Qiu WY, Jin NZ. Quantification of hyperconjugative effect on the proton donor X–H bond length changes in the red- and blueshifted hydrogen-bonded complexes. J Chem Phys 2012; 137:084311. [DOI: 10.1063/1.4748135] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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9
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Inagaki S, Murai H, Takeuchi T. Theory of electron localization and its application to blue-shifting hydrogen bonds. Phys Chem Chem Phys 2012; 14:2008-14. [DOI: 10.1039/c2cp23047j] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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10
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Scheiner S. Weak H-bonds. Comparisons of CH···O to NH···O in proteins and PH···N to direct P···N interactions. Phys Chem Chem Phys 2011; 13:13860-72. [PMID: 21573303 DOI: 10.1039/c1cp20427k] [Citation(s) in RCA: 153] [Impact Index Per Article: 11.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Whereas CH···O H-bonds are usually weaker than interpeptide NH···O H-bonds, this is not necessarily the case within proteins. The nominally weaker CH···O are surprisingly strong, comparable to, and in some cases stronger than, the NH···O H-bonds in the context of the forces that hold together the adjacent strands in protein β-sheets. The peptide NH is greatly weakened as proton donor in certain conformations of the protein backbone, particularly extended structures, and forms correspondingly weaker H-bonds. The PH group is a weak proton donor, but will form PH···N H-bonds. However, there is a stronger interaction in which P can engage, in which the P atom, not the H, directly approaches the N electron donor to establish a direct P···N interaction. This approach is stabilized by the same sort of electron transfer from the N lone pair to the P-H σ* antibond that characterizes the PH···N H-bond.
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Affiliation(s)
- Steve Scheiner
- Department of Chemistry and Biochemistry, Utah State University, Logan, UT 84322-0300, USA.
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11
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Rutkowski KS, Melikova SM, Rospenk M, Koll A. Strong and weak effects caused by non covalent interactions between chloroform and selected electron donor molecules. Phys Chem Chem Phys 2011; 13:14223-34. [DOI: 10.1039/c1cp20727j] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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12
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Karpfen A. Blue-shifted A–H stretching frequencies in complexes with methanol: the decisive role of intramolecular coupling. Phys Chem Chem Phys 2011; 13:14194-201. [DOI: 10.1039/c1cp20607a] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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13
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14
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Karpfen A, Kryachko ES. The dimers of glyoxal and acrolein with H2O and HF: Negative intramolecular coupling and blue-shifted C–H stretch. Chem Phys Lett 2010. [DOI: 10.1016/j.cplett.2010.02.054] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
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15
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Bovee-Geurts PHM, Fernández Fernández I, Liu RSH, Mathies RA, Lugtenburg J, DeGrip WJ. Fluoro Derivatives of Retinal Illuminate the Decisive Role of the C12-H Element in Photoisomerization and Rhodopsin Activation. J Am Chem Soc 2009; 131:17933-42. [DOI: 10.1021/ja907577p] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Petra H. M. Bovee-Geurts
- Department of Biochemistry, UMCN 286, Nijmegen Centre for Molecular Life Sciences, Radboud University Nijmegen Medical Centre, P.O. Box 9101, 6500 HB Nijmegen, The Netherlands, Department of BioOrganic Photochemistry, Leiden Institute of Chemistry, Leiden University, P.O. Box 9502, 2300 RA Leiden, The Netherlands, Department of Chemistry, University of Hawaii at Manao, 2545 The Mall, Honolulu, Hawaii 96822, and Department of Chemistry, University of California, Berkeley, California 94720
| | - Isabelle Fernández Fernández
- Department of Biochemistry, UMCN 286, Nijmegen Centre for Molecular Life Sciences, Radboud University Nijmegen Medical Centre, P.O. Box 9101, 6500 HB Nijmegen, The Netherlands, Department of BioOrganic Photochemistry, Leiden Institute of Chemistry, Leiden University, P.O. Box 9502, 2300 RA Leiden, The Netherlands, Department of Chemistry, University of Hawaii at Manao, 2545 The Mall, Honolulu, Hawaii 96822, and Department of Chemistry, University of California, Berkeley, California 94720
| | - Robert S. H. Liu
- Department of Biochemistry, UMCN 286, Nijmegen Centre for Molecular Life Sciences, Radboud University Nijmegen Medical Centre, P.O. Box 9101, 6500 HB Nijmegen, The Netherlands, Department of BioOrganic Photochemistry, Leiden Institute of Chemistry, Leiden University, P.O. Box 9502, 2300 RA Leiden, The Netherlands, Department of Chemistry, University of Hawaii at Manao, 2545 The Mall, Honolulu, Hawaii 96822, and Department of Chemistry, University of California, Berkeley, California 94720
| | - Richard A. Mathies
- Department of Biochemistry, UMCN 286, Nijmegen Centre for Molecular Life Sciences, Radboud University Nijmegen Medical Centre, P.O. Box 9101, 6500 HB Nijmegen, The Netherlands, Department of BioOrganic Photochemistry, Leiden Institute of Chemistry, Leiden University, P.O. Box 9502, 2300 RA Leiden, The Netherlands, Department of Chemistry, University of Hawaii at Manao, 2545 The Mall, Honolulu, Hawaii 96822, and Department of Chemistry, University of California, Berkeley, California 94720
| | - Johan Lugtenburg
- Department of Biochemistry, UMCN 286, Nijmegen Centre for Molecular Life Sciences, Radboud University Nijmegen Medical Centre, P.O. Box 9101, 6500 HB Nijmegen, The Netherlands, Department of BioOrganic Photochemistry, Leiden Institute of Chemistry, Leiden University, P.O. Box 9502, 2300 RA Leiden, The Netherlands, Department of Chemistry, University of Hawaii at Manao, 2545 The Mall, Honolulu, Hawaii 96822, and Department of Chemistry, University of California, Berkeley, California 94720
| | - Willem J. DeGrip
- Department of Biochemistry, UMCN 286, Nijmegen Centre for Molecular Life Sciences, Radboud University Nijmegen Medical Centre, P.O. Box 9101, 6500 HB Nijmegen, The Netherlands, Department of BioOrganic Photochemistry, Leiden Institute of Chemistry, Leiden University, P.O. Box 9502, 2300 RA Leiden, The Netherlands, Department of Chemistry, University of Hawaii at Manao, 2545 The Mall, Honolulu, Hawaii 96822, and Department of Chemistry, University of California, Berkeley, California 94720
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Zhou PP, Qiu WY. Red- and Blue-Shifted Hydrogen Bonds in theCis-TransNoncyclic Formic Acid Dimer. Chemphyschem 2009; 10:1847-58. [DOI: 10.1002/cphc.200800870] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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18
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Karpfen A, Kryachko ES. On the Intramolecular Origin of the Blue Shift of A−H Stretching Frequencies: Triatomic Hydrides HAX. J Phys Chem A 2009; 113:5217-23. [DOI: 10.1021/jp9005923] [Citation(s) in RCA: 29] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Alfred Karpfen
- Institute for Theoretical Chemistry, University of Vienna, Währinger Straβe 17, A-1090 Vienna, Austria, and Bogolyubov Institute for Theoretical Physics, Kiev-143, 03680 Ukraine
| | - Eugene S. Kryachko
- Institute for Theoretical Chemistry, University of Vienna, Währinger Straβe 17, A-1090 Vienna, Austria, and Bogolyubov Institute for Theoretical Physics, Kiev-143, 03680 Ukraine
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Mukhopadhyay A, Mukherjee M, Pandey P, Samanta AK, Bandyopadhyay B, Chakraborty T. Blue Shifting C−H···O Hydrogen Bonded Complexes between Chloroform and Small Cyclic Ketones: Ring-Size Effects on Stability and Spectral Shifts. J Phys Chem A 2009; 113:3078-87. [DOI: 10.1021/jp900473w] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Anamika Mukhopadhyay
- Department of Physical Chemistry and Raman Center for Atomic Molecular and Optical Sciences, Indian Association for the Cultivation of Science, Jadavpur, Kolkata 700032, India
| | - Moitrayee Mukherjee
- Department of Physical Chemistry and Raman Center for Atomic Molecular and Optical Sciences, Indian Association for the Cultivation of Science, Jadavpur, Kolkata 700032, India
| | - Prasenjit Pandey
- Department of Physical Chemistry and Raman Center for Atomic Molecular and Optical Sciences, Indian Association for the Cultivation of Science, Jadavpur, Kolkata 700032, India
| | - Amit K. Samanta
- Department of Physical Chemistry and Raman Center for Atomic Molecular and Optical Sciences, Indian Association for the Cultivation of Science, Jadavpur, Kolkata 700032, India
| | - Biman Bandyopadhyay
- Department of Physical Chemistry and Raman Center for Atomic Molecular and Optical Sciences, Indian Association for the Cultivation of Science, Jadavpur, Kolkata 700032, India
| | - Tapas Chakraborty
- Department of Physical Chemistry and Raman Center for Atomic Molecular and Optical Sciences, Indian Association for the Cultivation of Science, Jadavpur, Kolkata 700032, India
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20
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Rutkowski KS, Karpfen A, Melikova SM, Herrebout WA, Koll A, Wolschann P, van der Veken BJ. Cryospectroscopic and ab initio studies of haloform–trimethylamine H-bonded complexes. Phys Chem Chem Phys 2009; 11:1551-63. [PMID: 19240932 DOI: 10.1039/b815554b] [Citation(s) in RCA: 28] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Affiliation(s)
- Konstantin S Rutkowski
- Department of Physics, St. Petersburg University, Uljanovskaja 1, 198504, St. Petersburg, Russian Federation.
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Solvation of Hydrogen Bonded Systems: CH···O, OH···O, and Cooperativity. CHALLENGES AND ADVANCES IN COMPUTATIONAL CHEMISTRY AND PHYSICS 2008. [DOI: 10.1007/978-1-4020-8270-2_15] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
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Brisdon AK, Flower KR, Pritchard RG. Raman spectrum of [Ru(CNBu t)(CO)(eta2-C6H4-2-CHO)(PPh3)2][BF4].2CDCl3 shows that the crystallographically determined bifurcated hydrogen-bonding interaction Cl3CD...F2BF2- is an example of a blue-shifting hydrogen bond. Inorg Chem 2007; 46:7189-92. [PMID: 17658879 DOI: 10.1021/ic701065w] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Raman data suggest that a crystallographically determined Cl3CD...F2BF2- interaction in the solid-state structure of [Ru(CNBut)(CO)(eta2-C6H4-2-CHO)(PPh3)2][BF4].2CDCl3 is an example of a blue-shifting bifurcated hydrogen bond. The nu(C-D) band blue-shifts 5 cm-1 to 2269 cm-1 compared to 2264 cm-1 for CDCl3 in the gas phase and 20 cm-1 from frozen CDCl3 at 2249 cm-1. A conventional interpretation of these band shifts would suggest that the CCl2 fragment of DCCl3 is a stronger hydrogen-bond acceptor than the BF2 fragment of a BF4- group.
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Affiliation(s)
- Alan K Brisdon
- School of Chemistry, The University of Manchester, Oxford Road, Manchester M13 9PL, U.K
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Karpfen A, Kryachko ES. Blue-Shifted A−H Stretching Modes and Cooperative Hydrogen Bonding. 1. Complexes of Substituted Formaldehyde with Cyclic Hydrogen Fluoride and Water Clusters. J Phys Chem A 2007; 111:8177-87. [PMID: 17661452 DOI: 10.1021/jp072717f] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The structures and vibrational spectra of the intermolecular complexes formed by insertion of substituted formaldehyde molecules HRCO (R = H, Li, F, Cl) into cyclic hydrogen fluoride and water clusters are studied at the MP2/aug-cc-pVTZ computational level. Depending on the nature of the substituent R, the cluster type, and its size, the C-H stretching modes of HRCO undergo large blue and partly red shifts, whereas all the F-H and O-H stretching modes of the conventional hydrogen bonds are strongly red-shifted. It is shown that (i) the mechanism of blue shifting can be explained within the concept of the negative intramolecular coupling between C-H and C=O bonds that is inherent to the HRCO monomers, (ii) the blue shifts also occur even if no hydrogen bond is formed, and (iii) variation of the acceptor X or the strength of the C-H...X hydrogen bond may either amplify the blue shift or cause a transition from blue shift to red shift. These findings are illustrated by means of intra- and intermolecular scans of the potential energy surfaces. The performance of the negative intramolecular coupling between C-H and C=O bonds of H(2)CO is interpreted in terms of the NBO analysis of the isolated H(2)CO molecule and H(2)CO interacting with (H2O)n and (HF)n clusters.
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Affiliation(s)
- Alfred Karpfen
- Institute for Theoretical Chemistry, University of Vienna, Währinger Strasse 17, A-1090 Vienna, Austria.
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Joseph J, Jemmis ED. Red-, Blue-, or No-Shift in Hydrogen Bonds: A Unified Explanation. J Am Chem Soc 2007; 129:4620-32. [PMID: 17375920 DOI: 10.1021/ja067545z] [Citation(s) in RCA: 564] [Impact Index Per Article: 33.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
We provide a simple explanation for X-H bond contraction and the associated blue shift and decrease of intensity in IR spectrum of the so-called improper hydrogen bonds. This explanation organizes hydrogen bonds (HBs) with a seemingly random relationship between the X-H bond length (and IR frequency and its intensity) to its interaction energy. The factors which affect the X-H bond in all X-H...Y HBs can be divided into two parts: (a) The electron affinity of X causes a net gain of electron density at the X-H bond region in the presence of Y and encourages an X-H bond contraction. (b) The well understood attractive interaction between the positive H and electron rich Y forces an X-H bond elongation. For electron rich, highly polar X-H bonds (proper HB donors) the latter almost always dominates and results in X-H bond elongation, whereas for less polar, electron poor X-H bonds (pro-improper HB donors) the effect of the former is noticeable if Y is not a very strong HB acceptor. Although both the above factors increase with increasing HB acceptor ability of Y, the shortening effect dominates over a range of Ys for suitable pro-improper X-Hs resulting in a surprising trend of decreasing X-H bond length with increasing HB acceptor ability. The observed frequency and intensity variations follow naturally. The possibility of HBs which do not show any IR frequency change in the X-H stretching mode also directly follows from this explanation.
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Affiliation(s)
- Jorly Joseph
- School of Chemistry, University of Hyderabad, Central University (P.O.), Hyderabad-500046, India
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On blue shifts of C–H stretching modes of dimethyl ether in hydrogen- and halogen-bonded complexes. Chem Phys Lett 2006. [DOI: 10.1016/j.cplett.2006.10.006] [Citation(s) in RCA: 56] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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