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Xie L, He A, Yang L, Ozaki Y, Noda I, Xu Y, Huang K. A comprehensive statistical approach to identify correct types of cross-peaks based on their symmetric feature. Phys Chem Chem Phys 2025. [PMID: 40424083 DOI: 10.1039/d5cp00297d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/29/2025]
Abstract
Cross-peak signature patterns in two-dimensional (2D) asynchronous spectra are a useful tool for revealing the deeper physicochemical characteristics of intermolecular interactions. Various interferences such as noise can cause problems in recognizing the correct type of cross-peaks. The symmetrical characteristics of the cross-peaks may offer an intrinsic criterion for distinguishing between different types of cross-peaks. When intermolecular interaction only brings about a shift in the characteristic peak of a solute, we found that the resultant cross-peaks possess a mirror symmetry. However, such a symmetry may not be directly observable in the 2D asynchronous spectrum covered by severe noise. To solve this problem, a comprehensive approach to identify the symmetry is developed. Firstly, a method to locate the mirror is proposed. Then, the Kolmogorov-Smirnov test and Bayesian analysis are used to obtain the probability of the existence of mirror symmetry in the cross-peak group. The approach is showcased in three model systems and a real-world example (the benzene/I2 system), which demonstrates that the approach is helpful in assigning the correct type of cross-peak under difficult situations.
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Affiliation(s)
- Linchen Xie
- School of Metallurgical and Ecological Engineering, University of Science and Technology Beijing, Beijing 100083, China.
- Beijing National Laboratory for Molecular Sciences, State Key Laboratory for Rare Earth Materials Chemistry and Applications, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China.
| | - Anqi He
- Beijing National Laboratory for Molecular Sciences, State Key Laboratory for Rare Earth Materials Chemistry and Applications, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China.
| | - Limin Yang
- State Key Laboratory of Nuclear Physics and Technology, Institute of Heavy Ion Physics, School of Physics, Peking University, Beijing 100871, China.
| | - Yukihiro Ozaki
- Beijing National Laboratory for Molecular Sciences, State Key Laboratory for Rare Earth Materials Chemistry and Applications, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China.
- School of Biological and Environmental Sciences, Kwansei Gakuin University, Sanda, Hyogo 669-1330, Japan
| | - Isao Noda
- Beijing National Laboratory for Molecular Sciences, State Key Laboratory for Rare Earth Materials Chemistry and Applications, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China.
- Department of Materials Science and Engineering, University of Delaware, Newark, Delaware 19716, USA
| | - Yizhuang Xu
- Beijing National Laboratory for Molecular Sciences, State Key Laboratory for Rare Earth Materials Chemistry and Applications, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China.
| | - Kun Huang
- School of Metallurgical and Ecological Engineering, University of Science and Technology Beijing, Beijing 100083, China.
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2
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He AQ, Yu ZQ, Song J, Yang LM, Xu YZ, Noda I, Ozaki Y. Novel Method for Extracting the Spectrum of a Supramolecular Complex via a Comprehensive Approach Involving Two-Dimensional Correlation Spectroscopy, Genetic Algorithm, and Grid Searching. Anal Chem 2022; 94:2348-2355. [PMID: 35041394 DOI: 10.1021/acs.analchem.1c05209] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
A supramolecular complex may be formed by two solutes via a weak intermolecular interaction in a solution. The spectrum of the complex is often inundated by the spectra of the solutes that are not involved in the intermolecular interaction. Herein, a novel spectral analysis approach is proposed to retrieve the spectrum of the supramolecular complex. First, a two-dimensional (2D) asynchronous spectrum is constructed. Then, a genetic algorithm is used to obtain a heuristic spectrum of the supramolecular complex. The heuristic spectrum is a linear combination of the spectrum of the complex and the spectrum of a solute. The coefficients of the linear combination are then obtained, according to which the equilibrium constants are invariant among the sample solutions used to construct the 2D asynchronous spectrum. We have applied the approach to a supramolecular system formed by benzene and I2. In the analysis, several binding models are evaluated, and a benzene molecule interacting with two iodine molecules via halogen bonding turns out to be the only possible model. Hence, the characteristic band of the benzene/I2 supramolecular complex around 1819 cm-1 in the Fourier transform infrared (FTIR) spectrum and the corresponding equilibrium constant are obtained. The above results indicate that the novel approach provides a chance to get new insight into various intermolecular interactions studied by spectroscopy.
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Affiliation(s)
- An-Qi He
- College of Chemistry and Environmental Engineering, Shenzhen University, Shenzhen 518060, P. R. China.,Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, College of Optoelectronic Engineering, Shenzhen University, Shenzhen 518060, P. R. China.,Beijing National Laboratory for Molecular Sciences, State Key Laboratory for Rare Earth Materials Chemistry and Applications, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, P. R. China
| | - Zhen-Qiang Yu
- College of Chemistry and Environmental Engineering, Shenzhen University, Shenzhen 518060, P. R. China.,Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, College of Optoelectronic Engineering, Shenzhen University, Shenzhen 518060, P. R. China
| | - Jun Song
- Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, College of Optoelectronic Engineering, Shenzhen University, Shenzhen 518060, P. R. China
| | - Li-Min Yang
- State Key Laboratory of Nuclear Physics and Technology, Institute of Heavy Ion Physics, School of Physics, Peking University, Beijing 100871, P. R. China
| | - Yi-Zhuang Xu
- Beijing National Laboratory for Molecular Sciences, State Key Laboratory for Rare Earth Materials Chemistry and Applications, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, P. R. China
| | - Isao Noda
- Beijing National Laboratory for Molecular Sciences, State Key Laboratory for Rare Earth Materials Chemistry and Applications, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, P. R. China.,Department of Materials Science and Engineering, University of Delaware, Newark, Delaware 19716, United States
| | - Yukihiro Ozaki
- Beijing National Laboratory for Molecular Sciences, State Key Laboratory for Rare Earth Materials Chemistry and Applications, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, P. R. China.,School of Biological and Environmental Sciences, Kwansei Gakuin University, Sanda, Hyogo 669-1337, Japan
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3
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Formation and Structure of Iodine: Water (H2O-I2) charge-transfer complex. J CHEM SCI 2021. [DOI: 10.1007/s12039-021-01912-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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4
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Trujillo C, Sánchez-Sanz G, Elguero J, Alkorta I. The Lewis acidities of gold(I) and gold(III) derivatives: a theoretical study of complexes of AuCl and AuCl3. Struct Chem 2020. [DOI: 10.1007/s11224-020-01590-0] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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Adaikala Baskar AJ, Kumar R, Solomon RV, Sundararajan M, Kannappan V, Singh DR, Jaccob M. Ultrasonic, spectrophotometric and theoretical studies of sigma and PI interactions of iodine with substituted benzene. RSC Adv 2015. [DOI: 10.1039/c5ra03297k] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022] Open
Abstract
The acoustical method shows the ability to study the structure, energetics and spectroscopic aspects of charge transfer complexes of three different benzenoid compounds with iodine and is supported by the UV-Visible and DFT methods.
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Affiliation(s)
| | - R. Kumar
- Department of Physics
- The New College
- Chennai 600 014
- India
| | - R. Vijay Solomon
- Department of Chemical Engineering
- University of South Carolina
- Columbia
- USA
| | - Mahesh Sundararajan
- Theoretical Chemistry Section
- Bhabha Atomic Research Centre
- Mumbai 400 085
- India
| | - Venu Kannappan
- Department of Chemistry
- Presidency College
- Chennai 600 005
- India
| | - D. Roop Singh
- Department of Chemistry
- Presidency College
- Chennai 600 005
- India
| | - M. Jaccob
- Department of Chemistry
- Loyola College
- Chennai 600 034
- India
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6
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Shukla M, Srivastava N, Saha S. Investigation of ground state charge transfer complex between paracetamol and p-chloranil through DFT and UV–visible studies. J Mol Struct 2012. [DOI: 10.1016/j.molstruc.2012.04.075] [Citation(s) in RCA: 51] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
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7
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Šakić D, Vrček V. Prereactive Complexes in Chlorination of Benzene, Triazine, and Tetrazine: A Quantum Chemical Study. J Phys Chem A 2012; 116:1298-306. [DOI: 10.1021/jp210993k] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Davor Šakić
- Faculty of Pharmacy and
Biochemistry, University of Zagreb, A.
Kovačića 1,
HR-10000 Zagreb, Croatia
| | - Valerije Vrček
- Faculty of Pharmacy and
Biochemistry, University of Zagreb, A.
Kovačića 1,
HR-10000 Zagreb, Croatia
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TIWARY AMITS, SENGUPTA PARTHASARATHI, MUKHERJEE ASOKK. MODELING THE GROUND STATE GEOMETRY AND ESTIMATING THE CHARGE TRANSFER TRANSITION ENERGY OF THE TOLUENE–ICl MOLECULAR COMPLEX BY AB INITIO AND DFT METHODS. JOURNAL OF THEORETICAL & COMPUTATIONAL CHEMISTRY 2011. [DOI: 10.1142/s0219633608003782] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
Abstract
Out of several plausible isomeric structures of the toluene–ICl charge transfer (CT) complex, the most feasible one was determined by a detailed ab initio and DFT study at the HF, B3LYP, and mPW1PW91 levels using 6-31++G(d, p) basis set. Potential energy surface scans were performed with six possible structures ( I and Cl facing the o-, m-, and p-carbon atoms of toluene separately); the structures at the local minima of the surfaces were subjected to frequency calculation and the ones having no negative frequency were accepted as the real structure in the ground state. These structures were then subjected to full optimization. It was observed that the I – Cl bond, with its I atom oriented toward the aromatic ring, stands vertically above a C -atom at the ortho or para positions, being inclined at about 9° to the line perpendicular to the aromatic ring. Complexation increases the I – Cl bond length. After correction for basis set superposition error through a counterpoise calculation, we conclude from the binding energy that the preferred structure is the one with ICl above the ortho C atom. The calculated binding energy closely matches the experimental free energy of complexation. The electronic CT transition energy (hν CT ) with this structure in the ground state was calculated in vacuo by the restricted configuration interaction singlets method and in carbontetrachloride medium by the time dependent density functional theory method under the polarizable continuum model. The value of hν CT obtained from the ground-to-excited state transition electric dipole moments of the complex, is close to (somewhat underestimated) the reported experimental value.
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Affiliation(s)
- AMIT S. TIWARY
- Department of Chemistry, Netaji Mahavidyalaya, Arambagh, Hooghly 712601, India
| | | | - ASOK K. MUKHERJEE
- Department of Chemistry, The University of Burdwan, Burdwan 713104, India
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Tiwary AS, Mukherjee AK. Calculation of the charge transfer transition energy of the mesitylene–ICl complex byab initioand TDDFT methods: Comparison with other methylbenzene–ICl complexes. Mol Phys 2009. [DOI: 10.1080/00268970903140458] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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10
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Kiviniemi T, Hulkko E, Kiljunen T, Pettersson M. Iodine−Benzene Complex as a Candidate for a Real-Time Control of a Bimolecular Reaction. Spectroscopic Studies of the Properties of the 1:1 Complex Isolated in Solid Krypton. J Phys Chem A 2009; 113:6326-33. [DOI: 10.1021/jp902012u] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Tiina Kiviniemi
- Nanoscience Center, Department of Chemistry, P.O. Box 35, FI-40014 University of Jyväskylä, Finland
| | - Eero Hulkko
- Nanoscience Center, Department of Chemistry, P.O. Box 35, FI-40014 University of Jyväskylä, Finland
| | - Toni Kiljunen
- Nanoscience Center, Department of Chemistry, P.O. Box 35, FI-40014 University of Jyväskylä, Finland
| | - Mika Pettersson
- Nanoscience Center, Department of Chemistry, P.O. Box 35, FI-40014 University of Jyväskylä, Finland
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11
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Ab initio and TDDFT investigations on charge transfer transition for the o-chloranil/aniline complex in gas phase. Chem Phys Lett 2007. [DOI: 10.1016/j.cplett.2007.08.041] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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12
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Tiwary AS, Sengupta PS, Mukherjee AK. Study of charge transfer transition in benzene–ICl complex in gas phase and in CCl4 medium by ab initio and TDDFT methods. Chem Phys Lett 2007. [DOI: 10.1016/j.cplett.2006.11.064] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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13
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Weng KF, Shi Y, Zheng X, Phillips DL. Resonance Raman Investigation of the Short-Time Photodissociation Dynamics of the Charge-Transfer Absorption of the I2−Benzene Complex in Benzene Solution. J Phys Chem A 2005; 110:851-60. [PMID: 16419981 DOI: 10.1021/jp055069d] [Citation(s) in RCA: 33] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
Resonance Raman spectra were obtained for the I2-benzene complex in benzene solvent with excitation wavelengths in resonance with the CT-band absorption. These spectra indicate that the Franck-Condon region photodissociation dynamics have multidimensional character with motion mainly along the nominal I-I stretch mode nu(18), the nominal symmetric benzene ring stretch mode nu5, and the nominal symmetric CCH bending nu7. There is also a small contribution from the nominal out-of-plane CH oop wag nu15. A preliminary resonance Raman intensity analysis was done, and the results for the I2-benzene complex were compared to results previously reported for the 1-hexene-I2 complex. We briefly discuss the differences and similarities in the CT-band absorption excitation of an I2-benzene complex relative to those of an I2-alkene complex.
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Affiliation(s)
- Ke-Feng Weng
- Department of Applied Chemistry, Zhejiang Sci-Tech University, Second Road, Xia Sha Gao Jiao Yuan Qu Hangzhou 310033, P. R. China
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Wei Y, Wang BW, Hu SW, Chu TW, Tang LT, Liu XQ, Wang Y, Wang XY. Theoretical study of the iodination of methoxybenzene by iodine monochloride. J PHYS ORG CHEM 2005. [DOI: 10.1002/poc.911] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
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15
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Tang LT, Wei Y, Wang Y, Hu SW, Liu XQ, Chu TW, Wang XY. A density functional study on the formation of charge transfer complexes between alkaloids and iodine monochloride. ACTA ACUST UNITED AC 2004. [DOI: 10.1016/j.theochem.2004.07.026] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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16
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Fukin GK, Lindeman SV, Kochi JK. Molecular structures of cation...pi(arene) interactions for alkali metals with pi- and sigma-modalities. J Am Chem Soc 2002; 124:8329-36. [PMID: 12105914 DOI: 10.1021/ja0203465] [Citation(s) in RCA: 66] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
The monovalent cations of Na(+), K(+), Rb(+), and Cs(+) derived from the highly electropositive alkali metals represent prototypical charged spheres that are mainly subject to relatively simple electrostatic and solvation (hydration) forces. We now find that the largest of these Rb(+) and Cs(+) are involved in rather strong cation...pi(arene) interactions when they are suitably disposed with the ambifunctional hexasubstituted benzene C(6)E(6). The ether tentacles (E = methoxymethyl) allow these cations to effect eta(1)-bonding to the benzene center in a manner strongly reminiscent of the classical sigma-arene complexes with positively charged electrophiles where Z(+) = CH(3)(+), Br(+), Cl(+), Et(3)Si(+), etc. The somewhat smaller potassium cation is involved in a similar M(+)...pi(arene) interaction that leads to eta(2)-bonding with the aromatic center in the pi-mode previously defined in the well-known series of silver(I)/arene complexes. We can find no evidence for significant Na(+)... pi(arene) interaction under essentially the same conditions. As such, the sigma-structure of the Rb(+) and Cs(+) complexes and pi-structure of the K(+) complex are completely integrated into the continuum of sigma-pi bondings of various types of electrophilic (cationic) acceptors with arene donors that were initially identified by Mulliken as charge-transfer.
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Affiliation(s)
- Georgy K Fukin
- Department of Chemistry, University of Houston, Houston, Texas 77204-5003, USA
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17
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Ananthavel S, Manoharan M. A theoretical study on electron donor–acceptor complexes of Et2O, Et2S and Me3N with interhalogens, I–X (X=Cl and Br). Chem Phys 2001. [DOI: 10.1016/s0301-0104(01)00363-9] [Citation(s) in RCA: 45] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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18
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Zhong D, Bernhardt TM, Zewail AH. Femtosecond Real-Time Probing of Reactions. 24. Time, Velocity, and Orientation Mapping of the Dynamics of Dative Bonding in Bimolecular Electron Transfer Reactions. J Phys Chem A 1999. [DOI: 10.1021/jp9919359] [Citation(s) in RCA: 28] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Dongping Zhong
- Arthur Amos Noyes Laboratory of Chemical Physics, California Institute of Technology, Pasadena, California 91125
| | - Thorsten M. Bernhardt
- Arthur Amos Noyes Laboratory of Chemical Physics, California Institute of Technology, Pasadena, California 91125
| | - Ahmed H. Zewail
- Arthur Amos Noyes Laboratory of Chemical Physics, California Institute of Technology, Pasadena, California 91125
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Ammal SSC, Venuvanalingam P. π-systems as lithium/hydrogen bond acceptors: Some theoretical observations. J Chem Phys 1998. [DOI: 10.1063/1.477651] [Citation(s) in RCA: 61] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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