1
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Gannouni A, Tahri W, Roisnel T, Riadh K. X-ray diffraction, IR spectrum, optical properties, AIM, NBO, RDG, HS, Fukui function, biological and molecular docking analysis of a novel hybrid compound (C9H15N3)[CuCl4(H2O)]. J Mol Struct 2023. [DOI: 10.1016/j.molstruc.2022.134094] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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2
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Adhikari A, Pandey A, Kumar D, Tiwari AK. Determination of Hybrid TSPO Ligands with Minimal Impact of SNP
(rs6971) through Molecular Docking and MD Simulation Study. LETT DRUG DES DISCOV 2022. [DOI: 10.2174/1570180818666210413130326] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Background:
In an endeavor to ascertain high-affinity TSPO ligands with minimal single
nucleotide polymorphism (SNP), six hybrid molecules have been identified as new leads for future
inflammation PET imaging.
Objective:
Genesis for chemical design was encouraged from structural families of well-known ligands
FEBMP and PBR28/ DAA1106 that have demonstrated remarkable TSPO binding characteristics.
Methods:
All proposed hybrid ligands 1-6 are subjected to molecular docking and simulation studies
with wild and mutant protein to study their interactions, binding, consistency of active conformations
and are correlated with well-established TSPO ligands.
Results:
Each hybrid ligand demonstrate better docking score > -11.00 kcal/mol with TSPO with
respect to gold standard PK11195, i.e., -11.00 kcal/mol for 4UC3 and -12.94 kcal/mol for 4UC1. On
comparison with FEBMP and GE-180 (-12.57, -7.24 kcal/mol for 4UC3 and -14.10, -11.32
kcal/mol for 4UC1), ligand 3 demonstrates maximum docking energy (> -15.50 kcal/mol) with
minimum SNP (0.26 kcal/mol).
Discussion:
Presence of strong hydrogen bond Arg148-3.27Å (4UC1) and Trp50-2.43Å, Asp28-
2.57Å (4UC3) apart from short-range interactions, including π–π interactions with the aromatic residues,
such as (Trp39, Phe46, Trp135) and (Trp39, Trp108), attributes towards its strong binding.
Conclusion:
Utilizing the results of binding energy, we concluded stable complex formation of these
hybrid ligands that could bind to TSPO with the least effect of SNP with similar interactions to
known ligands. Overall, ligand 3 stands out as the best ligand having insignificant deviations per
residue of protein that can be further explored and assessed in detail for future inflammation PET
application after subsequent detailed biological evaluation.
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Affiliation(s)
- Anupriya Adhikari
- Department of Chemistry, Babasaheb Bhimrao Ambedkar University, Lucknow, Uttar Pradesh, India
| | - Anwesh Pandey
- Department of
Physics, Babasaheb Bhimrao Ambedkar University, Lucknow, Uttar Pradesh, India
| | - Devesh Kumar
- Department of
Physics, Babasaheb Bhimrao Ambedkar University, Lucknow, Uttar Pradesh, India
| | - Anjani K. Tiwari
- Department of Chemistry, Babasaheb Bhimrao Ambedkar University, Lucknow, Uttar Pradesh, India
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3
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Singh S. Meet the Editorial Board Member. MINI-REV ORG CHEM 2022. [DOI: 10.2174/1570193x1904220118105123] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Affiliation(s)
- Simranjeet Singh
- Interdisciplinary Centre for Water Research Indian Institute of Sciences Bangalore, India
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4
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Synthesis, structural characterization, antibacterial activity, DFT computational studies and thermal analysis of two new thiocyanate compounds based on 1-phenylpiperazine. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2022.132620] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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5
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Desai N, Monapara J, Jethawa A, Khedkar V, Shingate B. Oxadiazole: A highly versatile scaffold in drug discovery. Arch Pharm (Weinheim) 2022; 355:e2200123. [PMID: 35575467 DOI: 10.1002/ardp.202200123] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2022] [Revised: 04/11/2022] [Accepted: 04/14/2022] [Indexed: 12/26/2022]
Abstract
As a pharmacologically important heterocycle, oxadiazole paved the way to combat the problem associated with the confluence of many commercially available drugs with different pharmacological profiles. The present review focuses on the potential applications of five-membered heterocyclic oxadiazole derivatives, especially 1,2,4-oxadiazole, 1,2,5-oxadiazole, and 1,3,4-oxadiazole, as therapeutic agents. Designing new hybrid molecules containing the oxadiazole moiety is a better solution for the development of new drug molecules. The designed molecules may accumulate a biological profile better than those of the drugs currently available on the market. The present review will guide the way for researchers in the field of medicinal chemistry to design new biologically active molecules based on the oxadiazole nucleus. Antitubercular, antimalarial, anti-inflammatory, anti-HIV, antibacterial, and anticancer activities of various oxadiazoles have been reviewed extensively here.
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Affiliation(s)
- Nisheeth Desai
- Division of Medicinal Chemistry, Department of Chemistry, Mahatma Gandhi Campus, Maharaja Krishnakumarsinhji Bhavnagar University, Bhavnagar, Gujarat, India
| | - Jahnvi Monapara
- Division of Medicinal Chemistry, Department of Chemistry, Mahatma Gandhi Campus, Maharaja Krishnakumarsinhji Bhavnagar University, Bhavnagar, Gujarat, India
| | - Aratiba Jethawa
- Division of Medicinal Chemistry, Department of Chemistry, Mahatma Gandhi Campus, Maharaja Krishnakumarsinhji Bhavnagar University, Bhavnagar, Gujarat, India
| | - Vijay Khedkar
- School of Pharmacy, Vishwakarma University, Pune, Maharashtra, India
| | - Bapurao Shingate
- Department of Chemistry, Dr. Babasaheb Ambedkar Marathwada University, Aurangabad, Maharashtra, India
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6
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Recent advancements and developments in search of anti-tuberculosis agents: A quinquennial update and future directions. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2021.131473] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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7
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Raj A, Kumar A, Dames JF. Tapping the Role of Microbial Biosurfactants in Pesticide Remediation: An Eco-Friendly Approach for Environmental Sustainability. Front Microbiol 2021; 12:791723. [PMID: 35003022 PMCID: PMC8733403 DOI: 10.3389/fmicb.2021.791723] [Citation(s) in RCA: 20] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2021] [Accepted: 11/22/2021] [Indexed: 11/15/2022] Open
Abstract
Pesticides are used indiscriminately all over the world to protect crops from pests and pathogens. If they are used in excess, they contaminate the soil and water bodies and negatively affect human health and the environment. However, bioremediation is the most viable option to deal with these pollutants, but it has certain limitations. Therefore, harnessing the role of microbial biosurfactants in pesticide remediation is a promising approach. Biosurfactants are the amphiphilic compounds that can help to increase the bioavailability of pesticides, and speeds up the bioremediation process. Biosurfactants lower the surface area and interfacial tension of immiscible fluids and boost the solubility and sorption of hydrophobic pesticide contaminants. They have the property of biodegradability, low toxicity, high selectivity, and broad action spectrum under extreme pH, temperature, and salinity conditions, as well as a low critical micelle concentration (CMC). All these factors can augment the process of pesticide remediation. Application of metagenomic and in-silico tools would help by rapidly characterizing pesticide degrading microorganisms at a taxonomic and functional level. A comprehensive review of the literature shows that the role of biosurfactants in the biological remediation of pesticides has received limited attention. Therefore, this article is intended to provide a detailed overview of the role of various biosurfactants in improving pesticide remediation as well as different methods used for the detection of microbial biosurfactants. Additionally, this article covers the role of advanced metagenomics tools in characterizing the biosurfactant producing pesticide degrading microbes from different environments.
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Affiliation(s)
- Aman Raj
- Metagenomics and Secretomics Research Laboratory, Department of Botany, Dr. Harisingh Gour University (Central University), Sagar, India
| | - Ashwani Kumar
- Metagenomics and Secretomics Research Laboratory, Department of Botany, Dr. Harisingh Gour University (Central University), Sagar, India
- Mycorrhizal Research Laboratory, Department of Biochemistry and Microbiology, Rhodes University, Grahamstown, South Africa
| | - Joanna Felicity Dames
- Mycorrhizal Research Laboratory, Department of Biochemistry and Microbiology, Rhodes University, Grahamstown, South Africa
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8
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Al-Ghorbani M, Gouda MA, Baashen M, Ranganatha V. L. Pyrimidine-Piperazine Hybrids; Recent Synthesis and Biological Activities. Polycycl Aromat Compd 2021. [DOI: 10.1080/10406638.2021.1998144] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Affiliation(s)
- Mohammed Al-Ghorbani
- Department of Chemistry, Faculty of Science and Arts, Ulla, Taibah University, Medina, Saudi Arabia
- Department of Chemistry, Faculty of Education, Thamar University, Thamar, Yemen
| | - Moustafa A. Gouda
- Department of Chemistry, Faculty of Science and Arts, Ulla, Taibah University, Medina, Saudi Arabia
- Department of Chemistry, Faculty of Science, Mansoura University, Mansoura, Egypt
| | - Mohammed Baashen
- Department of Chemistry, Science and Humanities College, Shaqra University, Shaqraa, Saudi Arabia
| | - Lakshmi Ranganatha V.
- Department of Chemistry, The National Institute of Engineering, Mysore, Karnataka, India
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9
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Patil M, Noonikara-Poyil A, Joshi SD, Patil SA, Patil SA, Lewis AM, Bugarin A. Synthesis, molecular docking studies, and in vitro antimicrobial evaluation of piperazine and triazolo-pyrazine derivatives. Mol Divers 2021; 26:827-841. [PMID: 33547619 DOI: 10.1007/s11030-021-10190-x] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2020] [Accepted: 01/21/2021] [Indexed: 11/28/2022]
Abstract
For this work, two series of new piperazine derivatives (3a-o) and triazolo-pyrazine derivatives (3p-t) were synthesized in a single-step reaction. All twenty adducts were obtained in good to high yields and fully characterized by 1H NMR, 13C NMR, IR, and mass spectrometry techniques. To further confirm the chemical identity of the adducts, a crystal of N-{[(4-chlorophenyl)-3-(trifluoromethyl)]-5,6-dihydro-[1,2,4]triazolo[4,3-a]}pyrazine-7(8H)-carboxamide (3t) was prepared and analyzed using X-ray crystallography. In vitro screening of the antimicrobial activity of all compounds (3a-t) was evaluated against five bacterial and two fungal strains. This study disclosed that N-{[(3-chlorophenyl)]-4-(dibenzo[b,f][1,4]thiazepin-11-yl)}piperazine-1-carboxamide (3o) was the superior antimicrobial with good growth inhibition against A. baumannii. Furthermore, the results from the performed molecular docking studies were promising, since the observed data could be used to develop more potent antimicrobials.
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Affiliation(s)
- Mahadev Patil
- Centre for Nano and Material Sciences, Jain University, Jain Global Campus, Bangalore, 562112, Karnataka, India
| | - Anurag Noonikara-Poyil
- Department of Chemistry and Biochemistry, University of Texas At Arlington, Arlington, TX, 76019, USA
| | - Shrinivas D Joshi
- Novel Drug Design and Discovery Laboratory, Department of Pharmaceutical Chemistry, S. E. T's College of Pharmacy, Sangolly Rayanna Nagar, Dharwad, 580 002, Karnataka, India
| | - Shivaputra A Patil
- Pharmaceutical Sciences Department, College of Pharmacy, Rosalind Franklin University of Medicine and Science, 3333 Green Bay Road, North Chicago, IL, 60064, USA
| | - Siddappa A Patil
- Centre for Nano and Material Sciences, Jain University, Jain Global Campus, Bangalore, 562112, Karnataka, India.
| | - Abby M Lewis
- Department of Chemistry and Physics, Florida Gulf Coast University, Fort Myers, FL, 33965, USA
| | - Alejandro Bugarin
- Department of Chemistry and Physics, Florida Gulf Coast University, Fort Myers, FL, 33965, USA.
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10
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Bhati S. Structure-based drug designing of naphthalene based SARS-CoV PLpro inhibitors for the treatment of COVID-19. Heliyon 2020; 6:e05558. [PMID: 33251371 PMCID: PMC7679114 DOI: 10.1016/j.heliyon.2020.e05558] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2020] [Revised: 10/15/2020] [Accepted: 11/16/2020] [Indexed: 12/11/2022] Open
Abstract
The emergence of Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has imposed a greater challenge for the world. Coronavirus has infected over 38.3 million people and caused millions of deaths worldwide. The COVID-19 outbreak has accentuated the need for additional efforts to develop broad-spectrum therapeutics to combat SARS-CoV-2 infection. In the current investigation, an attempt was made to design potential SARS-CoV PLpro inhibitors containing naphthalene and 3,4-dihydro-2H-pyran moieties connected via -NHCO- linker. The ligands obeyed Lipinski's rule and were found to have good drug-likeness and ADMET properties. Docking simulations confirmed strong binding affinity and inhibition potential of the designed ligands against the receptor SARS CoV-2 Papain-like protease (PLpro). LigandL10 incorporating the oxadiazole ring system displayed better binding affinity than the control 5-acetamido-2-methyl-N-[(1R)-1-naphthalen-1-ylethyl]benzamide. Further, the docked complex of LigandL10 was subjected to molecular dynamics (MD) simulation to examine the molecular mechanisms of protein-ligand interactions. The results of the present study are encouraging. Ligand L10 emerged as the most potent ligand in the series and could be considered for further research for the development of potential therapeutics for the treatment of COVID-19.
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Affiliation(s)
- Shipra Bhati
- Department of Chemistry, The Oxford College of Engineering, Bommanhalli, Bangalore, 560068, Karnataka, India
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11
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Verma SK, Verma R, Verma S, Vaishnav Y, Tiwari SP, Rakesh KP. Anti-tuberculosis activity and its structure-activity relationship (SAR) studies of oxadiazole derivatives: A key review. Eur J Med Chem 2020; 209:112886. [PMID: 33032083 DOI: 10.1016/j.ejmech.2020.112886] [Citation(s) in RCA: 28] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2020] [Revised: 08/19/2020] [Accepted: 09/23/2020] [Indexed: 01/09/2023]
Abstract
With the increasing number of cases of inactive and drug-resistance tuberculosis, there is an urgent need to develop new potent molecules set for fighting this brutal disease. Medicinal chemistry concerns the discovery, the development, the identification, and the interpretation of the mode of action of biologically active compounds at the molecular level. Molecules bearing oxadiazoles are one such class that could be considered to satisfy this need. Oxadiazole regioisomers have been investigated in drug discovery programs for their capacity to go about as powerful linkers and as pharmacophoric highlights. Oxadiazoles can go about as bioisosteric substitutions for the hydrazide moiety which can be found in first-line anti-TB drugs, and some have been likewise answered to cooperate with more current anti-TB targets. This present review summarizes the current innovations of oxadiazole-based derivatives with potential antituberculosis activity and bacteria discussing various aspects of structure-activity relationship (SAR).
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Affiliation(s)
- Santosh Kumar Verma
- School of Chemistry and Chemical Engineering, Yulin University, Yulin, 719000, Shaanxi, PR China; Shaanxi Key Laboratory of Low Metamorphic Coal Clean Utilization, Yulin University, Yulin, 719000, Shaanxi, PR China
| | - Rameshwari Verma
- School of Chemistry and Chemical Engineering, Yulin University, Yulin, 719000, Shaanxi, PR China; Shaanxi Key Laboratory of Low Metamorphic Coal Clean Utilization, Yulin University, Yulin, 719000, Shaanxi, PR China.
| | - Shekhar Verma
- University College of Pharmacy Raipur, Pt. Deendayal Upadhyay Memorial Health, Sciences and Aayush University of Chhattisgarh, Raipur, 492010, Chhattisgarh, India
| | - Yogesh Vaishnav
- Shri Shankaracharya Technical Campus, Shri Shankaracharya Group of Institutions, Bhilai, 491001, Chhattisgarh, India
| | - S P Tiwari
- School of Life Science and Technology, Xi'an Jiaotong University, Xi'an, 710049, Shaanxi, PR China
| | - K P Rakesh
- School of Material Science and Engineering, Wuhan Institute of Technology, Wuhan, 430073, PR China.
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Patial PK, Sharma A, Kaur I, Cannoo DS. Correlation study among the extraction techniques, phytochemicals, and antioxidant activity of Nepeta spicata aerial part. BIOCATALYSIS AND AGRICULTURAL BIOTECHNOLOGY 2019. [DOI: 10.1016/j.bcab.2019.101275] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
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13
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Volatile and semi-volatile compounds of Tephrosia purpurea and its medicinal activities: Experimental and computational studies. BIOCATALYSIS AND AGRICULTURAL BIOTECHNOLOGY 2019. [DOI: 10.1016/j.bcab.2019.101222] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
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14
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Singh S, Kumar V, Singh S, Singh J. Influence of humic acid, iron and copper on microbial degradation of fungicide Carbendazim. BIOCATALYSIS AND AGRICULTURAL BIOTECHNOLOGY 2019. [DOI: 10.1016/j.bcab.2019.101196] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
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