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Panneerselvam M, Deepan Kumar M, Nisanth P, Jaccob M, Vijay Solomon R. Quantum mechanical study on complexation phenomenon of pillar[5]arene towards neutral dicyanobutane. Supramol Chem 2022. [DOI: 10.1080/10610278.2022.2151366] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 12/05/2022]
Affiliation(s)
- Murugesan Panneerselvam
- Department of Chemistry, Sri Moogambigai College of Arts and Science for Women (SMCAS), Palacode, Dharmapuri, India
- Department of Chemistry & Computational Chemistry Laboratory, Loyola Institute of Frontier Energy (LIFE), Loyola College, chennai, India
| | - Madhu Deepan Kumar
- Department of Chemistry & Computational Chemistry Laboratory, Loyola Institute of Frontier Energy (LIFE), Loyola College, chennai, India
- Department of Chemistry, K. Ramakrishnan College of Technology, Samayapuram, India
| | - Prasannan Nisanth
- Department of Chemistry & Computational Chemistry Laboratory, Loyola Institute of Frontier Energy (LIFE), Loyola College, chennai, India
| | - Madhavan Jaccob
- Department of Chemistry & Computational Chemistry Laboratory, Loyola Institute of Frontier Energy (LIFE), Loyola College, chennai, India
| | - Rajadurai Vijay Solomon
- Department of Chemistry, Madras Christian College (Autonomous), (Affiliated to University of Madras) Tambaram East, Chennai, India
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Halogen-Based 17β-HSD1 Inhibitors: Insights from DFT, Docking, and Molecular Dynamics Simulation Studies. MOLECULES (BASEL, SWITZERLAND) 2022; 27:molecules27123962. [PMID: 35745085 PMCID: PMC9229637 DOI: 10.3390/molecules27123962] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/02/2022] [Revised: 06/03/2022] [Accepted: 06/06/2022] [Indexed: 11/17/2022]
Abstract
The high expression of 17β-hydroxysteroid dehydrogenase type 1 (17β-HSD1) mRNA has been found in breast cancer tissues and endometriosis. The current research focuses on preparing a range of organic molecules as 17β-HSD1 inhibitors. Among them, the derivatives of hydroxyphenyl naphthol steroidomimetics are reported as one of the potential groups of inhibitors for treating estrogen-dependent disorders. Looking at the recent trends in drug design, many halogen-based drugs have been approved by the FDA in the last few years. Here, we propose sixteen potential hydroxyphenyl naphthol steroidomimetics-based inhibitors through halogen substitution. Our Frontier Molecular Orbitals (FMO) analysis reveals that the halogen atom significantly lowers the Lowest Unoccupied Molecular Orbital (LUMO) level, and iodine shows an excellent capability to reduce the LUMO in particular. Tri-halogen substitution shows more chemical reactivity via a reduced HOMO-LUMO gap. Furthermore, the computed DFT descriptors highlight the structure-property relationship towards their binding ability to the 17β-HSD1 protein. We analyze the nature of different noncovalent interactions between these molecules and the 17β-HSD1 using molecular docking analysis. The halogen-derived molecules showed binding energy ranging from -10.26 to -11.94 kcal/mol. Furthermore, the molecular dynamics (MD) simulations show that the newly proposed compounds provide good stability with 17β-HSD1. The information obtained from this investigation will advance our knowledge of the 17β-HSD1 inhibitors and offer clues to developing new 17β-HSD1 inhibitors for future applications.
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Mohammadsaleh F, Barmak A, Hajipou A, Jajarmi S, Niknam K. Organic/inorganic Copper(I)-based Ionic Structures [cation]+[CunCln+1]−: Efficient and Versatile Nanocatalysts for Organic Reactions. J Organomet Chem 2022. [DOI: 10.1016/j.jorganchem.2022.122271] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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de Oliveira BG, Zabardasti A, do Rego DG, Pour MM. The formation of H···X hydrogen bond, C···X carbon-halide or Si···X tetrel bonds on the silylene-halogen dimers (X = F or Cl): intermolecular strength, molecular orbital interactions and prediction of covalency. Theor Chem Acc 2020. [DOI: 10.1007/s00214-020-02644-6] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
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Kanao E, Morinaga T, Kubo T, Naito T, Matsumoto T, Sano T, Maki H, Yan M, Otsuka K. Separation of halogenated benzenes enabled by investigation of halogen-π interactions with carbon materials. Chem Sci 2019; 11:409-418. [PMID: 32190261 PMCID: PMC7067276 DOI: 10.1039/c9sc04906a] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2019] [Accepted: 11/16/2019] [Indexed: 12/16/2022] Open
Abstract
We report the existence of bimodal interactions, the π–π and halogen–π interactions, between the halogenated benzenes and aromatic materials.
The halogen–π (X–π) interaction is an intermolecular interaction between the electron-poor region of bonded halogen atoms and aromatic rings. We report an experimental evaluation of the halogen–π (X–π) interaction using liquid chromatography with carbon-material coated columns providing strong π interactions in the normal phase mode. A C70-fullerene (C70)-coated column showed higher retentions for halogenated benzenes as the number of halogen substitutions increased as a result of X–π interactions. In addition, the strength of the X–π interaction increased in the order of F < Cl < Br < I. Changes to the UV absorption of C70 and the brominated benzenes suggested that the intermolecular interaction changed from the π–π interaction to X–π interaction as the number of bromo substitutions increased. Computer simulations also showed that the difference in dipole moments among structural isomers affected the strength of the π–π interaction. Furthermore, we concluded from small peak shifts in 1H NMR and from computer simulations that the orbital interaction contributes to the X–π interactions. Finally, we succeeded in the one-pot separation of all isomers of brominated benzenes using the C70-coated column by optimizing the mobile phase conditions.
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Affiliation(s)
- Eisuke Kanao
- Graduate School of Engineering , Kyoto University , Katsura, Nishikyo-ku , Kyoto 615-8510 , Japan . ; ; Tel: +81-75-383-2448
| | - Takuya Morinaga
- Graduate School of Engineering , Kyoto University , Katsura, Nishikyo-ku , Kyoto 615-8510 , Japan . ; ; Tel: +81-75-383-2448
| | - Takuya Kubo
- Graduate School of Engineering , Kyoto University , Katsura, Nishikyo-ku , Kyoto 615-8510 , Japan . ; ; Tel: +81-75-383-2448
| | - Toyohiro Naito
- Graduate School of Engineering , Kyoto University , Katsura, Nishikyo-ku , Kyoto 615-8510 , Japan . ; ; Tel: +81-75-383-2448
| | - Takatoshi Matsumoto
- Institute of Multidisciplinary Research for Advanced Materials , Tohoku University , 2-1-1, Katahira, Aoba-ku , Sendai 980-8577 , Japan
| | - Tomoharu Sano
- Center for Environmental Measurement and Analysis , National Institute for Environmental Studies , Onogawa 16-2 , Tsukuba , Ibaraki 305-8506 , Japan
| | - Hideshi Maki
- Center for Environmental Management , Kobe University , 1-1 Rokkodai-cho, Nada-ku , Kobe 657-8501 , Japan.,Department of Chemical Science and Engineering , Graduate School of Engineering , Kobe University , 1-1 Rokkodai-cho , Nada-ku , Kobe 657-8501 , Japan
| | - Mingdi Yan
- Department of Chemistry , University of Massachusetts Lowell , One University Ave. , Lowell , MA 01854 , USA
| | - Koji Otsuka
- Graduate School of Engineering , Kyoto University , Katsura, Nishikyo-ku , Kyoto 615-8510 , Japan . ; ; Tel: +81-75-383-2448
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Kiruba R, Vinod S, Zaibudeen A, Solomon RV, Philip J. Stability and rheological properties of hybrid γ-Al2O3 nanofluids with cationic polyelectrolyte additives. Colloids Surf A Physicochem Eng Asp 2018. [DOI: 10.1016/j.colsurfa.2018.06.044] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
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Tomori T, Nagaoka K, Takeshita L, Shiozawa T, Miyatake Y, Masaki Y, Sekine M, Seio K. Deoxynucleoside Triphosphate Containing Pyridazin-3-one Aglycon as a Thymidine Triphosphate Substitute for Primer Extension and Chain Elongation by Klenow Fragments. J Org Chem 2018; 83:8353-8363. [PMID: 29952565 DOI: 10.1021/acs.joc.8b00918] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
Deoxynucleoside 5'-triphosphate was synthesized with 3-oxo-2 H-pyridazin-6-yl (PzO)-a uracil analogue lacking a 2-keto group-as the nucleobase. Theoretical analyses and hybridization experiments indicated that PzO recognizes adenine (A) for formation of a Watson-Crick base pair. Primer extension reactions using nucleoside 5'-triphosphate and the Klenow fragment revealed that the synthetic nucleoside 5'-triphosphate was incorporated into the 3' end of the primer through recognition of A in the template strand. Moreover, the 3'-nucleotide residue harboring PzO as the base was resistant to the 3'-exonuclease activity of Klenow fragment exo+. The primer bearing the PzO base at the 3' end could function in subsequent chain elongation. These properties of PzO were attributed to the presence of an endocyclic nitrogen atom at the position ortho to the glycosidic bond, which was presumed to form an H-bond with the amino acid residue of DNA polymerase for effective recognition of the 3' end of the primer for primer extension. These results provide a basis for designing new nucleobases by combining a nitrogen atom at the position ortho to the glycosidic bond and base-pairing sites for Watson-Crick hydrogen bonding.
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Affiliation(s)
- Takahito Tomori
- School of Life Science and Technology , Tokyo Institute of Technology , 4259 Nagatsuta , Midoriku, Yokohama 226-8501 , Japan
| | - Kento Nagaoka
- School of Life Science and Technology , Tokyo Institute of Technology , 4259 Nagatsuta , Midoriku, Yokohama 226-8501 , Japan
| | - Leo Takeshita
- School of Life Science and Technology , Tokyo Institute of Technology , 4259 Nagatsuta , Midoriku, Yokohama 226-8501 , Japan
| | - Takashi Shiozawa
- School of Life Science and Technology , Tokyo Institute of Technology , 4259 Nagatsuta , Midoriku, Yokohama 226-8501 , Japan
| | - Yuya Miyatake
- School of Life Science and Technology , Tokyo Institute of Technology , 4259 Nagatsuta , Midoriku, Yokohama 226-8501 , Japan
| | - Yoshiaki Masaki
- School of Life Science and Technology , Tokyo Institute of Technology , 4259 Nagatsuta , Midoriku, Yokohama 226-8501 , Japan
| | - Mitsuo Sekine
- School of Life Science and Technology , Tokyo Institute of Technology , 4259 Nagatsuta , Midoriku, Yokohama 226-8501 , Japan
| | - Kohji Seio
- School of Life Science and Technology , Tokyo Institute of Technology , 4259 Nagatsuta , Midoriku, Yokohama 226-8501 , Japan
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l-arginine directed and ultrasonically aided growth of nanocrystalline hydroxyapatite particles with tunable morphology. Colloids Surf A Physicochem Eng Asp 2018. [DOI: 10.1016/j.colsurfa.2017.11.012] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
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Panneerselvam M, Kumar MD, Jaccob M, Solomon RV. Computational Unravelling of the Role of Alkyl Groups on the Host-Guest Complexation of Pillar[5]arenes with Neutral Dihalobutanes. ChemistrySelect 2018. [DOI: 10.1002/slct.201702541] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- Murugesan Panneerselvam
- Department of Chemistry; Loyola College (Autonomous); Chennai - 600 034, Tamil Nadu India
- Computational Chemistry Laboratory; Loyola Institute of Frontier Energy (LIFE); Loyola College (Autonomous); Chennai - 600 034, Tamil Nadu India
| | - Madhu Deepan Kumar
- Department of Chemistry; Loyola College (Autonomous); Chennai - 600 034, Tamil Nadu India
- Computational Chemistry Laboratory; Loyola Institute of Frontier Energy (LIFE); Loyola College (Autonomous); Chennai - 600 034, Tamil Nadu India
| | - Madhavan Jaccob
- Department of Chemistry; Loyola College (Autonomous); Chennai - 600 034, Tamil Nadu India
- Computational Chemistry Laboratory; Loyola Institute of Frontier Energy (LIFE); Loyola College (Autonomous); Chennai - 600 034, Tamil Nadu India
| | - Rajadurai Vijay Solomon
- Department of Chemistry; Madras Christian College (Autonomous), Tambaram East; Chennai - 600 059, Tamil Nadu India
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Quantum chemical analysis of electronic structure and bonding aspects of choline based ionic liquids. J Mol Liq 2018. [DOI: 10.1016/j.molliq.2017.11.080] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
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Yahia-Ouahmed M, Tognetti V, Joubert L. Intramolecular halogen bonding: an interacting quantum atoms study. Theor Chem Acc 2016. [DOI: 10.1007/s00214-015-1796-2] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
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Jana K, Ganguly B. In silico studies with substituted adenines to achieve a remarkable stability of mispairs with thymine nucleobase. NEW J CHEM 2016. [DOI: 10.1039/c5nj02311d] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The modified adenine and thymine mispair achieves a remarkable stability, which can presumably help the DNA lesions to be less cytotoxic.
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Affiliation(s)
- Kalyanashis Jana
- Computation and Simulation Unit (Analytical Discipline and Centralized Instrument Facility)
- CSIR – Central Salt and Marine Chemicals Research Institute
- Bhavnagar – 364002
- India
- Academy of Scientific and Innovative Research
| | - Bishwajit Ganguly
- Computation and Simulation Unit (Analytical Discipline and Centralized Instrument Facility)
- CSIR – Central Salt and Marine Chemicals Research Institute
- Bhavnagar – 364002
- India
- Academy of Scientific and Innovative Research
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Yahia-Ouahmed M, Tognetti V, Joubert L. Halogen–halogen interactions in perhalogenated ethanes: An interacting quantum atoms study. COMPUT THEOR CHEM 2015. [DOI: 10.1016/j.comptc.2014.09.004] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
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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: 1.7] [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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