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Roy N, Das R, Paira R, Paira P. Different routes for the construction of biologically active diversely functionalized bicyclo[3.3.1]nonanes: an exploration of new perspectives for anticancer chemotherapeutics. RSC Adv 2023; 13:22389-22480. [PMID: 37501776 PMCID: PMC10369265 DOI: 10.1039/d3ra02003g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2023] [Accepted: 05/09/2023] [Indexed: 07/29/2023] Open
Abstract
Cancer is the second most high-morbidity disease throughout the world. From ancient days, natural products have been known to possess several biological activities, and research on natural products is one of the most enticing areas where scientists are engrossed in the extraction of valuable compounds from various plants to isolate many life-saving medicines, along with their other applications. It has been noticed that the bicyclo[3.3.1]nonane moiety is predominant in most biologically active natural products owing to its exceptional characteristics compared to others. Many derivatives of bicyclo[3.3.1]nonane are attractive to researchers for use in asymmetric catalysis or as potent anticancer entities along with their successful applications as ion receptors, metallocycles, and molecular tweezers. Therefore, this review article discusses several miscellaneous synthetic routes for the construction of bicyclo[3.3.1]nonanes and their heteroanalogues in association with the delineation of their anticancer activities with few selective compounds.
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Affiliation(s)
- Nilmadhab Roy
- Department of Chemistry, School of Advanced Sciences, Vellore Institute of Technology Vellore 632014 Tamilnadu India
- Department of Chemistry, Maharaja Manindra Chandra College 20 Ramkanto Bose Street Kolkata 700 003 India
| | - Rishav Das
- Department of Chemistry, School of Advanced Sciences, Vellore Institute of Technology Vellore 632014 Tamilnadu India
- Department of Chemistry, Maharaja Manindra Chandra College 20 Ramkanto Bose Street Kolkata 700 003 India
| | - Rupankar Paira
- Department of Chemistry, School of Advanced Sciences, Vellore Institute of Technology Vellore 632014 Tamilnadu India
- Department of Chemistry, Maharaja Manindra Chandra College 20 Ramkanto Bose Street Kolkata 700 003 India
| | - Priyankar Paira
- Department of Chemistry, School of Advanced Sciences, Vellore Institute of Technology Vellore 632014 Tamilnadu India
- Department of Chemistry, Maharaja Manindra Chandra College 20 Ramkanto Bose Street Kolkata 700 003 India
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Rees GJ, Pitak MB, Lari A, Day SP, Yates JR, Gierth P, Barnsley K, Smith ME, Coles SJ, Hanna JV, Wallis JD. Mapping of N−C Bond Formation from a Series of Crystalline Peri‐Substituted Naphthalenes by Charge Density and Solid‐State NMR Methodologies. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202111100] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
- Gregory J. Rees
- Department of Physics University of Warwick Gibbet Hill Road Coventry CV4 7AL UK
- Department of Materials University of Oxford Parks Rd Oxford OX1 3PH UK
| | - Mateusz B. Pitak
- School of Chemistry University of Southampton Highfield Southampton SO17 1BJ UK
| | - Alberth Lari
- School of Science and Technology Nottingham Trent University Clifton Lane Nottingham NG11 8NS UK
| | - Stephen P. Day
- Department of Physics University of Warwick Gibbet Hill Road Coventry CV4 7AL UK
| | - Jonathan R. Yates
- Department of Materials University of Oxford Parks Rd Oxford OX1 3PH UK
| | | | - Kristian Barnsley
- Department of Physics University of Warwick Gibbet Hill Road Coventry CV4 7AL UK
| | - Mark E. Smith
- Vice-Chancellor's Office University of Southampton Highfield Southampton SO17 1BJ UK
| | - Simon J. Coles
- School of Chemistry University of Southampton Highfield Southampton SO17 1BJ UK
| | - John V. Hanna
- Department of Physics University of Warwick Gibbet Hill Road Coventry CV4 7AL UK
| | - John D. Wallis
- School of Science and Technology Nottingham Trent University Clifton Lane Nottingham NG11 8NS UK
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Rees GJ, Pitak MB, Lari A, Day SP, Yates JR, Gierth P, Barnsley K, Smith ME, Coles SJ, Hanna JV, Wallis JD. Mapping of N-C Bond Formation from a Series of Crystalline Peri-Substituted Naphthalenes by Charge Density and Solid-State NMR Methodologies. Angew Chem Int Ed Engl 2021; 60:23878-23884. [PMID: 34464506 PMCID: PMC8596510 DOI: 10.1002/anie.202111100] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2021] [Indexed: 11/21/2022]
Abstract
A combination of charge density studies and solid state nuclear magnetic resonance (NMR) 1 JNC coupling measurements supported by periodic density functional theory (DFT) calculations is used to characterise the transition from an n-π* interaction to bond formation between a nucleophilic nitrogen atom and an electrophilic sp2 carbon atom in a series of crystalline peri-substituted naphthalenes. As the N⋅⋅⋅C distance reduces there is a sharp decrease in the Laplacian derived from increasing charge density between the two groups at ca. N⋅⋅⋅C = 1.8 Å, with the periodic DFT calculations predicting, and heteronuclear spin-echo NMR measurements confirming, the 1 JNC couplings of ≈3-6 Hz for long C-N bonds (1.60-1.65 Å), and 1 JNC couplings of <1 Hz for N⋅⋅⋅C >2.1 Å.
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Affiliation(s)
- Gregory J. Rees
- Department of PhysicsUniversity of WarwickGibbet Hill RoadCoventryCV4 7ALUK
- Department of MaterialsUniversity of OxfordParks RdOxfordOX1 3PHUK
| | - Mateusz B. Pitak
- School of ChemistryUniversity of SouthamptonHighfieldSouthamptonSO17 1BJUK
| | - Alberth Lari
- School of Science and TechnologyNottingham Trent UniversityClifton LaneNottinghamNG11 8NSUK
| | - Stephen P. Day
- Department of PhysicsUniversity of WarwickGibbet Hill RoadCoventryCV4 7ALUK
| | | | | | - Kristian Barnsley
- Department of PhysicsUniversity of WarwickGibbet Hill RoadCoventryCV4 7ALUK
| | - Mark E. Smith
- Vice-Chancellor's OfficeUniversity of SouthamptonHighfieldSouthamptonSO17 1BJUK
| | - Simon J. Coles
- School of ChemistryUniversity of SouthamptonHighfieldSouthamptonSO17 1BJUK
| | - John V. Hanna
- Department of PhysicsUniversity of WarwickGibbet Hill RoadCoventryCV4 7ALUK
| | - John D. Wallis
- School of Science and TechnologyNottingham Trent UniversityClifton LaneNottinghamNG11 8NSUK
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Hayashi S, Nishide T, Nagata K, Nakanishi W. Linear Multiselenium Interactions in Dicationic Oligomers of 1,5-(Diselena)canes: Behavior of Se mc σ(m c c-n e e) (6≤m c ≤16) Elucidated with QTAIM Dual Functional Analysis. ChemistryOpen 2021; 10:656-665. [PMID: 33934565 PMCID: PMC8248919 DOI: 10.1002/open.202100017] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2021] [Revised: 03/11/2021] [Indexed: 12/02/2022] Open
Abstract
The intrinsic dynamic and static nature mc center-ne electron interactions of the σ-type σ(mc c-ne e) were elucidated for the Se-Se interactions in dicationic oligomers of Se(CH2 CH2 CH2 )2 Se (1 (Se, Se)) [n2+ (Se, Se): n=1-8], especially for mc ≥6, where n2+ (Se, Se: n=1-8) are abbreviated by n2+ (n=1-8), respectively. QTAIM dual functional analysis (QTAIM-DFA) was applied to the interactions. Perturbed structures generated using coordinates derived from the compliance constants (Cii ) were employed for QTAIM-DFA. Each Se-*-Se in 12+ and 22+ has the nature of CT-TBP (trigonal bipyramidal adduct formation through CT) and Cov-w (weak covalent), respectively, which supply the starting points of the investigations. The asterisk emphasizes the existence of a bond critical point on the interaction. All Se-*-Se in 32+ are classified by the regular closed shell (r-CS) interactions and characterized as CT-MC (molecular complex formation through CT), which are denoted as r-CS/CT-MC, except for the central interaction, of which nature is r-CS/CT-TBP. Most interactions in 42+ -82+ are r-CS/t-HBwc (typical-HB with covalency) but some are pure-CS/t-HBnc (t-HB with no covalency). The linear Se2n 2+ interactions in 22+ -82+ seem close to those without any limitations, since the nature of Se-*-Se inside and outside of (CH2 CH2 CH2 )2 are very similar with each other. The linear Se2n 2+ interactions in 32+ -82+ are shown to be analyzed as σ(mc c-ne e: 6≤mc ≤16), not by the accumulated σ(3c-4e).
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Grants
- 17K05785 Ministry of Education, Culture, Sports, Science, and Technology, Japan
- Ministry of Education, Culture, Sports, Science, and Technology, Japan
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Affiliation(s)
- Satoko Hayashi
- Faculty of Systems EngineeringWakayama University930 SakaedaniWakayama640-8510Japan
| | - Taro Nishide
- Faculty of Systems EngineeringWakayama University930 SakaedaniWakayama640-8510Japan
| | - Kengo Nagata
- Faculty of Systems EngineeringWakayama University930 SakaedaniWakayama640-8510Japan
| | - Waro Nakanishi
- Faculty of Systems EngineeringWakayama University930 SakaedaniWakayama640-8510Japan
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Hayashi S, Nishide T, Nakanishi W. Dynamic and Static Nature of Br 4 σ(4c-6e) and Se 2Br 5 σ(7c-10e) in the Selenanthrene System and Related Species Elucidated by QTAIM Dual Functional Analysis with QC Calculations. Bioinorg Chem Appl 2020; 2020:2901439. [PMID: 32774351 PMCID: PMC7396019 DOI: 10.1155/2020/2901439] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2019] [Revised: 06/15/2019] [Accepted: 11/19/2019] [Indexed: 11/18/2022] Open
Abstract
The nature of Br4 σ(4c-6e) of the BBr-∗-ABr-∗-ABr-∗-BBr form is elucidated for SeC12H8(Br)SeBr---Br-Br---BrSe(Br)C12H8Se, the selenanthrene system, and the models with QTAIM dual functional analysis (QTAIM-DFA). Asterisks (∗) are employed to emphasize the existence of bond critical points on the interactions in question. Data from the fully optimized structure correspond to the static nature of interactions. In our treatment, data from the perturbed structures, around the fully optimized structure, are employed for the analysis, in addition to those from the fully optimized one, which represent the dynamic nature of interactions. The ABr-∗-ABr and ABr-∗-BBr interactions are predicted to have the CT-TBP (trigonal bipyramidal adduct formation through charge transfer) nature and the typical hydrogen bond nature, respectively. The nature of Se2Br5 σ(7c-10e) is also clarified typically, employing an anionic model of [Br-Se(C4H4Se)-Br---Br---Br-Se(C4H4Se)-Br]-, the 1,4-diselenin system, rather than (BrSeC12H8)Br---Se---Br-Br---Br-Se(C12H8Se)-Br, the selenanthrene system.
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Affiliation(s)
- Satoko Hayashi
- Faculty of Systems Engineering, Wakayama University, 930 Sakaedani, Wakayama 640-8510, Japan
| | - Taro Nishide
- Faculty of Systems Engineering, Wakayama University, 930 Sakaedani, Wakayama 640-8510, Japan
| | - Waro Nakanishi
- Faculty of Systems Engineering, Wakayama University, 930 Sakaedani, Wakayama 640-8510, Japan
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Nakanishi W, Hayashi S, Nishide T. Intrinsic dynamic and static nature of each HB in the multi-HBs between nucleobase pairs and its behavior, elucidated with QTAIM dual functional analysis and QC calculations. RSC Adv 2020; 10:24730-24742. [PMID: 35516213 PMCID: PMC9055173 DOI: 10.1039/d0ra01357a] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2020] [Accepted: 06/22/2020] [Indexed: 11/21/2022] Open
Abstract
The intrinsic dynamic and static nature of each HB in the multi-HBs between nucleobase pairs (Nu-Nu') is elucidated with QTAIM dual functional analysis (QTAIM-DFA). Perturbed structures generated using coordinates derived from the compliance constants (C ii ) are employed for QTAIM-DFA. The method is called CIV. Two, three, or four HBs are detected for Nu-Nu'. Each HB in Nu-Nu' is predicted to have the nature of CT-TBP (trigonal bipyramidal adduct formation through charge transfer (CT)), CT-MC (molecular complex formation through CT), or t-HBwc (typical HB with covalency), while the vdW nature is predicted for the C-H⋯X interactions, for example. Energies for the formation of the pairs (ΔE) are linearly correlated with the total values of C ii -1 in Nu-Nu'. The total C ii -1 values are obtained by summing each C ii -1 value, similarly to the case of Ohm's law for the parallel connection in the electric resistance. The total ΔE value for a nucleobase pair could be fractionalized to each HB, based on each C ii -1 value. The perturbed structures generated with CIV are very close to those generated with the partial optimization method, when the changes in the interaction distances are very small. The results provide useful insights for better understanding DNA processes, although they are highly enzymatic.
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Affiliation(s)
- Waro Nakanishi
- Faculty of Systems Engineering, Wakayama University 930 Sakaedani Wakayama 640-8510 Japan +81 73 457 8252
| | - Satoko Hayashi
- Faculty of Systems Engineering, Wakayama University 930 Sakaedani Wakayama 640-8510 Japan +81 73 457 8252
| | - Taro Nishide
- Faculty of Systems Engineering, Wakayama University 930 Sakaedani Wakayama 640-8510 Japan +81 73 457 8252
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Hayashi S, Nishide T, Nakanishi W. Behavior of Multi-HBs in Acetic Acid Dimer and Related Species: QTAIM Dual Functional Analysis Employing Perturbed Structures Generated Using Coordinates from Compliance Force Constants. BULLETIN OF THE CHEMICAL SOCIETY OF JAPAN 2019. [DOI: 10.1246/bcsj.20180186] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- Satoko Hayashi
- Faculty of Systems Engineering, Wakayama University, 930 Sakaedani, Wakayama 640-8510, Japan
| | - Taro Nishide
- Faculty of Systems Engineering, Wakayama University, 930 Sakaedani, Wakayama 640-8510, Japan
| | - Waro Nakanishi
- Faculty of Systems Engineering, Wakayama University, 930 Sakaedani, Wakayama 640-8510, Japan
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Behavior of I4
σ(4c-6e) in tellurolane system and related species, elucidated by QTAIM dual functional analysis with QC calculations. HETEROATOM CHEMISTRY 2018. [DOI: 10.1002/hc.21462] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
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Nishide T, Hayashi S, Nakanishi W. Intrinsic Dynamic Nature of Neutral Hydrogen Bonds Elucidated with QTAIM Dual Functional Analysis: Role of the Compliance Force Constants and QTAIM-DFA Parameters in Stability. ChemistryOpen 2018; 7:565-575. [PMID: 30094124 PMCID: PMC6077874 DOI: 10.1002/open.201800051] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/05/2018] [Indexed: 12/24/2022] Open
Abstract
The dynamic and static nature of various neutral hydrogen bonds (nHBs) is elucidated with quantum theory of atoms-in-molecules dual functional analysis (QTAIM-DFA). The perturbed structures generated by using the coordinates derived from the compliance force constants (Cij ) of internal vibrations are employed for QTAIM-DFA. The method is called CIV. The dynamic nature of CIV is described as the "intrinsic dynamic nature", as the coordinates are invariant to the choice of the coordinate system. nHBs are, for example, predicted to be van der Waals (H2Se-✶-HSeH; ✶=bond critical point), t-HBnc (typical-HBs with no covalency: HI-✶-HI), t-HBwc (t-HBs with covalency: H2C=O-✶-HI), CT-MC [molecular complex formation through charge transfer (CT): H2C=O-✶-HF], and CT-TBP (trigonal bipyramidal adduct formation through CT: H3N-✶-HI) in nature. The results with CIV were the same as those with POM in the calculation errors, for which the perturbed structures were generated by partial optimization, and the interaction distances in question were fixed suitably in POM. The highly excellent applicability of CIV for QTAIM-DFA was demonstrated for the various nHBs, as well as for the standard interactions previously reported. The stability of the HBs, evaluated by ΔE, is well correlated with Cij (ΔE×Cij =constant value of -165.64), and the QTAIM parameters, although a few deviations were detected.
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Affiliation(s)
- Taro Nishide
- Wakayama UniversityFaculty of Systems EngineeringWakayamaJapan
| | - Satoko Hayashi
- Wakayama UniversityFaculty of Systems EngineeringWakayamaJapan
| | - Waro Nakanishi
- Wakayama UniversityFaculty of Systems EngineeringWakayamaJapan
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