Hypercoordinate Carbon

A special issue of Chemistry (ISSN 2624-8549). This special issue belongs to the section "Theoretical and Computational Chemistry".

Deadline for manuscript submissions: closed (28 February 2023) | Viewed by 11733

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Department of Chemistry and Biochemistry, San Diego State University, San Diego, CA 92182, USA
Interests: planar tetracoordinate carbon; astrochemistry; quantum chemistry; molecular spectroscopy
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Dear Colleagues,

Although tetrahedral tetracoordination is the fundamental paradigm of organic chemistry, the identification of methanium ion, CH5+, in the laboratory through mass spectroscopic measurements challenged the way that one use to think about the coordination tendencies of carbon. While these experiments were carried out in 1950 and officially published in 1952 [1], it took another 47 years to record the infrared (IR) spectrum of this simple protonated methane [2]. Theoretical studies of two of the lithium carbides, CLi5 and CLi6, further motivated the interest in hypercoordinate carbon compounds. It is noted here that, perhaps, though these compounds are sometimes described as “hypervalent” in the literature, the extra electrons in lithium carbides beyond the usual “octet” are involved with the Li-Li bonding rather than with the Li-C bonding [3]. Therefore, these lithium carbides are hypercoordinate carbon molecules rather than hypervalent carbon molecules. Surprisingly, CLi6 was detected through mass spectroscopic measurements [4] in 1992, though the theoretical studies were carried out in 1983. Theoretical work on Si2(CH3)7+ and C(CH3)5+, and experimental works on [CCH3]62+, HC[Au(PPh3)]4+, [(C6H5)3PAu5C]+, [(Ph3PAu)6C]2+, C6[CH3]62+, etc., further motivated the interest in hypercoordinate carbon molecules [5-12].  Using anthracene moieties, Akiba and co-workers have shown penta and hexa coordinate organic molecules through X-ray crystallography and theoretical calculations [13-14]. Even in biological systems, such as the iron–molybdenum nitrogenease cofactor existing in diazotrphs, hexacoordinate carbon is predicted to be present [15].

The idea of making hypercoordinate carbon or silicon, or first-row or second-row elements in general, is not only to examine the coordination behavior of different elements but also to develop new materials. The main objective of this Special Issue is to collect some recent trends in this subject area, as the field is continuously emerging. Therefore, we wholeheartedly welcome contributions from both the experimental and theoretical scientific communities working in this intriguing field.

References:

[1] Tal'rose, V. L.; Lyubimova, A. K. Secondary Processes in the Ion Source of the Mass Spectrometer. Dokl. Akad. Nauk SSSR 1952, 86, 909 – 912.

[2] White, E. T.; Tang, J.; Oka, T. CH5+: The Infrared Spectrum Observed. Science 1999, 284, 135 – 137.

[3] Schleyer, P. v. R.; Würthwein, E.-U.; Kaufmann, E.; Clark, T.; Pople, J. A. Effectively Hypervalent Molecules. 2. Lithium Carbide (CLi5), Lithium Carbide (CLi6), and the Related Effectively Hypervalent First Row Molecules, CLi5-nHn and CLi6-nHn. J. Am. Chem. Soc. 1983, 105, 5930.

[4] Kudo, H. Observation of Hypervalent CLi6 by Knudsen-Effusion Mass Spectrometry. Nature 1992, 355, 432.

[5] Dávalos, J. A.; Herrero, R.; Abboud, J.-L. M.; Mó, O.; Yáñez, M. How Can a Carbon Atom Be Covalently Bound to Five Ligands? The Case of Si2(CH3)7+. Angew. Chem., Int. Ed. 2007, 46, 381-385.

[6] McKee, W. C.; Agarwal, J.; Schaefer III, H. F.; Schleyer, P. v. R. Covalent Hypercoordination: Can Carbon Bind Five Methyl Ligands? Angew. Chem., Int. Ed. 2014, 53, 7875 – 7878.

[7] Hogeveen, H.; Kwant, P. Direct Observation of a Remarkably Stable Dication of Unusual Structure: [CCH3]62+. Tetrahedron Lett. 1973, 14, 1665 – 1670.

[9] Schmidbaur, H.; Gabbaï, F. P.; Schier, A.; Riede, J. Hypercoordinate Carbon in Protonated Tetraauriomethane Molecules, Organometallics, 1995, 14, 4969 – 4971.

[10] Scherbaum, F.; Grohmann, A.; Müller, G.; Schmidbaur, H. Synthesis, Structure, and Bonding of the Cation [(C6H5)3PAu5C]+. Angew. Chem., Int. Ed. 1989, 28, 463 – 465.

[11] Scherbaum, F.; Grohmann, A.; Huber, B.; Krüger, C.; Schmidbaur, H. Aurophilicity as a Consequence of Relativistic Effects: The Hexakis(triphenylphosphaneaurio)methane Dication [(Ph3PAu)6C]2+. Angew. Chem., Int. Ed. 1988, 27, 1544 – 1546.

[12] Malischewski, M.; Seppelt, K. Crystal Structure Determination of the Pentagonal-Pyramidal Hexamethylbenzene Dication C6(CH3)62+. Angew. Chem., Int. Ed. 2017, 56, 368 – 370.

[13] Akiba, K.-y.; Yamashita, M.; Yamamoto, Y.; Nagase, S. Synthesis and Isolation of Stable Hypervalent Carbon Compound (10-C-5) Bearing a 1,8-Dimethoxyanthracene Ligand. J. Am. Chem. Soc. 1999, 121, 10644 – 10645.

[14] Yamaguchi, T.; Yamamoto, Y.; Kinoshita, D.; Akiba, K.-y.; Zhang, Y.; Reed, C. A.; Hashizume, D.; Iwasaki, F. Synthesis and Structure of a Hexacoordinate Carbon Compound. J. Am. Chem. Soc. 2008, 130, 6894 – 6895.

[15] Lancaster, K. M.; Roemelt, M.; Ettenhuber, P.;  Hu, Y.; Ribbe, M. W.; Neese, F.; Bergmann, U.; S. DeBeer, S. X-ray Emission Spectroscopy Evidences a Central Carbon in the Nitrogenase Iron-Molybdenum Cofactor. Science 2011, 334, 974 – 977.

Dr. Venkatesan S. Thimmakondu
Guest Editor

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Published Papers (4 papers)

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Research

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11 pages, 3432 KiB  
Communication
Five Bonds to Carbon through Tri-Coordination in Al3C3/0
by Abdul Hamid Malhan, Venkatesan S. Thimmakondu and Krishnan Thirumoorthy
Chemistry 2023, 5(2), 1113-1123; https://doi.org/10.3390/chemistry5020076 - 09 May 2023
Cited by 2 | Viewed by 2157
Abstract
Here, five bonds to carbon through tri-coordination are theoretically established in the global minimum energy isomers of Al3C3 anion (1a) and Al3C3 neutral (1n) for the first time. Various isomers of [...] Read more.
Here, five bonds to carbon through tri-coordination are theoretically established in the global minimum energy isomers of Al3C3 anion (1a) and Al3C3 neutral (1n) for the first time. Various isomers of Al3C3/0 are theoretically identified using density functional theory at the PBE0-D3/def2-TZVP level. Chemical bonding features are thoroughly analyzed for these two isomers (1a and 1n) with different bonding and topological quantum chemical tools, such as adaptive natural density partitioning (AdNDP), Wiberg Bond Indices (WBIs), nucleus-independent chemical shifts (NICS), and atoms in molecules (AIM) analyses. The structure of isomer 1a is planar with C2v symmetry, whereas its neutral counterpart 1n is non-planar with C2 symmetry, in which its terminal aluminum atoms are out of the plane. The central allenic carbon atom of isomers 1a and 1n exhibits tri-coordination and thus makes it a case of five bonds to carbon, which is confirmed through their total bond order as observed in WBI. Both the isomers show σ- and π-aromaticity and are predicted with the NICS and AdNDP analyses. Further, the results of ab initio molecular dynamics simulations reveal their kinetic stability at room temperature; thus, they are experimentally viable systems. Full article
(This article belongs to the Special Issue Hypercoordinate Carbon)
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12 pages, 2280 KiB  
Article
Theoretical Study of Excited-State Dynamics of Hypercoordinated Carbon Molecule
by Probal Nag and Sivaranjana Reddy Vennapusa
Chemistry 2023, 5(1), 269-280; https://doi.org/10.3390/chemistry5010021 - 15 Feb 2023
Viewed by 1397
Abstract
Structural and dynamical aspects of vibronically coupled S1 (dipole-allowed, “bright”) and S2 (dipole-forbidden, “dark”) states of hypercoordinated carbon molecule, 1,8-dimethoxy-9-dimethoxymethylanthracene monocation, are investigated. Potential energy surfaces are modeled within the linear vibronic coupling scheme. Quantum dynamics simulation show that the nuclear [...] Read more.
Structural and dynamical aspects of vibronically coupled S1 (dipole-allowed, “bright”) and S2 (dipole-forbidden, “dark”) states of hypercoordinated carbon molecule, 1,8-dimethoxy-9-dimethoxymethylanthracene monocation, are investigated. Potential energy surfaces are modeled within the linear vibronic coupling scheme. Quantum dynamics simulation show that the nuclear wavepacket initiated on the “bright” S1 state would move to “dark” S2 within a few femtoseconds via an accessible conical intersection. A dynamical equilibrium of wavepacket exchange between S1 and S2 is observed after 50 fs of propagation time. The activity of vibrational motions associated with the hypercoordinated carbon and C−H vibrations is analyzed using the reduced nuclear densities. Our findings illustrate that the excited-state nonadiabatic behavior has to be taken into account while analyzing the optical properties of this hypercoordinated carbon molecule. Full article
(This article belongs to the Special Issue Hypercoordinate Carbon)
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9 pages, 2572 KiB  
Communication
Pentacoordinate Carbon Atoms in a Ferrocene Dication Derivative—[Fe(Si2-η5-C5H2)2]2+
by Shilpa Shajan, Jin-Chang Guo, Aland Sinjari, Krishnan Thirumoorthy and Venkatesan S. Thimmakondu
Chemistry 2022, 4(4), 1092-1100; https://doi.org/10.3390/chemistry4040074 - 21 Sep 2022
Cited by 3 | Viewed by 2115
Abstract
Pentacoordinate carbon atoms are theoretically predicted here in a ferrocene dication derivative in the eclipsed-(1; C2v), gauche-(2; C2) and staggered-[Fe(Si2-η5-C5H2)2]2+( [...] Read more.
Pentacoordinate carbon atoms are theoretically predicted here in a ferrocene dication derivative in the eclipsed-(1; C2v), gauche-(2; C2) and staggered-[Fe(Si2-η5-C5H2)2]2+(3; C2h) forms for the first time. Energetically, the relative energy gaps for 2 and 3 range from −3.06 to 16.74 and −2.78 to 40.34 kJ mol1, respectively, when compared to the singlet electronic state of 1 at different levels. The planar tetracoordinate carbon (ptC) atom in the ligand Si2C5H2 becomes a pentacoordinate carbon upon complexation. The ligand with a ptC atom was predicted to be both a thermodynamically and kinetically stable molecule by some of us in our earlier theoretical works. Natural bond orbital and adaptive natural density partitioning analyses confirm the pentacoordinate nature of carbon in these three complexes (13). Although they are hypothetical at the moment, they support the idea of “hypercoordinate metallocenes” within organometallic chemistry. Moreover, ab initio molecular dynamics simulations carried out at 298 K temperature for 2000 fs suggest that these molecules are kinetically stable. Full article
(This article belongs to the Special Issue Hypercoordinate Carbon)
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Review

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34 pages, 7754 KiB  
Review
Structure and Bonding in Planar Hypercoordinate Carbon Compounds
by Prasenjit Das and Pratim Kumar Chattaraj
Chemistry 2022, 4(4), 1723-1756; https://doi.org/10.3390/chemistry4040113 - 15 Dec 2022
Cited by 8 | Viewed by 5038
Abstract
The term hypercoordination refers to the extent of the coordination of an element by its normal value. In the hypercoordination sphere, the element can achieve planar and/or non-planar molecular shape. Hence, planar hypercoordinate carbon species violate two structural rules: (i) The highest coordination [...] Read more.
The term hypercoordination refers to the extent of the coordination of an element by its normal value. In the hypercoordination sphere, the element can achieve planar and/or non-planar molecular shape. Hence, planar hypercoordinate carbon species violate two structural rules: (i) The highest coordination number of carbon is four and (ii) the tetrahedral orientation by the connected elements and/or groups. The unusual planar orientations are mostly stabilized by the electronic interactions of the central atom with the surrounding ligands. In this review article, we will talk about the current progress in the theoretical prediction of viable planar hypercoordinate carbon compounds. Primary knowledge of the planar hypercoordinate chemistry will lead to its forthcoming expansion. Experimental and theoretical interests in planar tetracoordinate carbon (ptC), planar pentacoordinate carbon (ppC), and planar hexacoordinate carbon (phC) are continued. The proposed electronic and mechanical strategies are helpful for the designing of the ptC compounds. Moreover, the 18-valence electron rule can guide the design of new ptC clusters computationally as well as experimentally. However, the counting of 18-valence electrons is not a requisite condition to contain a ptC in a cluster. Furthermore, this ptC idea is expanded to the probability of a greater coordination number of carbon in planar orientations. Unfortunately, until now, there are no such logical approaches to designing ppC, phC, or higher-coordinate carbon molecules/ions. There exist a few global minimum structures of phC clusters identified computationally, but none have been detected experimentally. All planar hypercoordinate carbon species in the global minima may be feasible in the gas phase. Full article
(This article belongs to the Special Issue Hypercoordinate Carbon)
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