1
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Verma S, Patidar RK, Tiwari R, Velayutham R, Ranjan N. Fragment-Based Design of Small Molecules to Study DNA Minor Groove Recognition. J Phys Chem B 2022; 126:7310-7320. [DOI: 10.1021/acs.jpcb.2c04825] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Smita Verma
- Department of Medicinal Chemistry, National Institute of Pharmaceutical Education and Research-Raebareli, New Transit Campus, Lucknow 226002, Uttar Pradesh, India,
- National Institute of Pharmaceutical Education and Research, Kolkata, Maniktala Main Road, Kolkata 700054, India
| | - Rajesh Kumar Patidar
- Department of Medicinal Chemistry, National Institute of Pharmaceutical Education and Research-Raebareli, New Transit Campus, Lucknow 226002, Uttar Pradesh, India,
| | - Ratnesh Tiwari
- Department of Medicinal Chemistry, National Institute of Pharmaceutical Education and Research-Raebareli, New Transit Campus, Lucknow 226002, Uttar Pradesh, India,
| | - Ravichandiran Velayutham
- National Institute of Pharmaceutical Education and Research, Kolkata, Maniktala Main Road, Kolkata 700054, India
| | - Nihar Ranjan
- Department of Medicinal Chemistry, National Institute of Pharmaceutical Education and Research-Raebareli, New Transit Campus, Lucknow 226002, Uttar Pradesh, India,
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2
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Verma S, Ravichandiran V, Ranjan N, Flora SJS. Recent Advances in Therapeutic Applications of Bisbenzimidazoles. Med Chem 2021; 16:454-486. [PMID: 31038072 DOI: 10.2174/1573406415666190416120801] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/20/2018] [Revised: 03/19/2019] [Accepted: 04/08/2019] [Indexed: 12/16/2022]
Abstract
Nitrogen-containing heterocycles are one of the most common structural motifs in approximately 80% of the marketed drugs. Of these, benzimidazoles analogues are known to elicit a wide spectrum of pharmaceutical activities such as anticancer, antibacterial, antiparasitic, antiviral, antifungal as well as chemosensor effect. Based on the benzimidazole core fused heterocyclic compounds, crescent-shaped bisbenzimidazoles were developed which provided an early breakthrough in the sequence-specific DNA recognition. Over the years, a number of functional variations in the bisbenzimidazole core have led to the emergence of their unique properties and established them as versatile ligands against several classes of pathogens. The present review provides an overview of diverse pharmacological activities of the bisbenzimidazole analogues in the past decade with a brief account of its development through the years.
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Affiliation(s)
- Smita Verma
- National Institute of Pharmaceutical Education and Research, ITI Compound, Raebareli, 229010, India.,National Institute of Pharmaceutical Education and Research, Kolkata, Maniktala Main Road, Kolkata, 700054, India
| | - Vishnuvardh Ravichandiran
- National Institute of Pharmaceutical Education and Research, Kolkata, Maniktala Main Road, Kolkata, 700054, India
| | - Nihar Ranjan
- National Institute of Pharmaceutical Education and Research, ITI Compound, Raebareli, 229010, India
| | - Swaran J S Flora
- National Institute of Pharmaceutical Education and Research, ITI Compound, Raebareli, 229010, India
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3
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Caymaz B, Yıldız U, Akkoç S, Gerçek Z, Şengül A, Coban B. Synthesis, Characterization, and Antiproliferative Activity Studies of Novel Benzimidazole‐Imidazopyridine Hybrids as DNA Groove Binders. ChemistrySelect 2020. [DOI: 10.1002/slct.202001580] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Affiliation(s)
- Bahar Caymaz
- Zonguldak Bülent Ecevit UniversityFaculty of Arts and SciencesDepartment of Chemistry 67100 Zonguldak Turkey
| | - Ufuk Yıldız
- Zonguldak Bülent Ecevit UniversityFaculty of Arts and SciencesDepartment of Chemistry 67100 Zonguldak Turkey
| | - Senem Akkoç
- Department of Basic Pharmaceutical SciencesFaculty of PharmacySüleyman Demirel University Isparta 32260 Turkey
| | - Zuhal Gerçek
- Zonguldak Bülent Ecevit UniversityFaculty of Arts and SciencesDepartment of Chemistry 67100 Zonguldak Turkey
| | - Abdurrahman Şengül
- Zonguldak Bülent Ecevit UniversityFaculty of Arts and SciencesDepartment of Chemistry 67100 Zonguldak Turkey
| | - Burak Coban
- Zonguldak Bülent Ecevit UniversityFaculty of Arts and SciencesDepartment of Chemistry 67100 Zonguldak Turkey
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4
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Shi Y, Jiang K, Zheng R, Fu J, Yan L, Gu Q, Zhang Y, Lin F. Design, Microwave‐Assisted Synthesis and in Vitro Antibacterial and Antifungal Activity of 2,5‐Disubstituted Benzimidazole. Chem Biodivers 2019; 16:e1800510. [DOI: 10.1002/cbdv.201800510] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2018] [Accepted: 11/16/2018] [Indexed: 12/19/2022]
Affiliation(s)
- Yanpeng Shi
- College of ChemistryJilin University Changchun 130012 P. R. China
| | - Kai Jiang
- School of life SciencesJilin University Changchun 130012 P. R. China
| | - Ran Zheng
- College of ChemistryJilin University Changchun 130012 P. R. China
| | - Jiaxu Fu
- College of ChemistryJilin University Changchun 130012 P. R. China
| | - Liuqing Yan
- College of ChemistryJilin University Changchun 130012 P. R. China
| | - Qiang Gu
- College of ChemistryJilin University Changchun 130012 P. R. China
| | - Yumin Zhang
- College of ChemistryJilin University Changchun 130012 P. R. China
| | - Feng Lin
- School of life SciencesJilin University Changchun 130012 P. R. China
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5
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Muhammad BT, Ullah A, Muhammad MT, Arshad T. DNA physical interaction mediated b-lymphoma treatment offered by tetra benzimidazole-substituted zinc (ii) phthalocyanine derivative. J Mol Recognit 2018; 31:e2733. [PMID: 29952029 DOI: 10.1002/jmr.2733] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2018] [Revised: 04/13/2018] [Accepted: 05/07/2018] [Indexed: 11/08/2022]
Abstract
Role of heterocyclic compounds with nitrogen substitution in therapeutic frontiers is well established. The efforts made in this study are directed to dissect the biological significance of benzimidazole-substituted zinc phthalocyanine derivative. Its capacity to act as an anticancer agent against the 2 B-lymphoma cell lines (low-grade and high-grade malignancy) was found out by recording florescence using Alamar blue dye. Further cytotoxic effect at the DNA level was analyzed by performing agarose gel electrophoresis. Molecular docking studies made mechanistic details crystal clear by showing potential dual binding modes employed for interaction with DNA that include minor groove binding and intercalation between bases. This advocates this derivative as potential anticancer agent and deserves further rounds of mechanistic study for its final journey to serve as a marketed drug.
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Affiliation(s)
- Bushra Taj Muhammad
- Dr Panjwani Center for Molecular Medicine and Drug Research, International Center for Chemical and Biological Sciences, University of Karachi, Karachi, Pakistan
| | - Azeem Ullah
- Fujian Institute of Research on the Structure of Matter, Fujian, China
| | | | - Tanzila Arshad
- Department of Applied Chemistry and Chemical technology, University of Karachi, Karachi, Pakistan
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6
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Chandrika NT, Shrestha SK, Ranjan N, Sharma A, Arya DP, Garneau-Tsodikova S. New Application of Neomycin B-Bisbenzimidazole Hybrids as Antifungal Agents. ACS Infect Dis 2018; 4:196-207. [PMID: 29227087 PMCID: PMC5971066 DOI: 10.1021/acsinfecdis.7b00254] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
Alkylated aminoglycosides and bisbenzimidazoles have previously been shown to individually display antifungal activity. Herein, we explore for the first time the antifungal activity (in liquid cultures and in biofilms) of ten alkylated aminoglycosides covalently linked to either mono- or bisbenzimidazoles. We also investigate their toxicity against mammalian cells, their hemolytic activity, and their potential mechanism(s) of action (inhibition of fungal ergosterol biosynthetic pathway and/or reactive oxygen species (ROS) production). Overall, many of our hybrids exhibited broad-spectrum antifungal activity. We also found them to be less cytotoxic to mammalian cells and less hemolytic than the FDA-approved antifungal agents amphotericin B and voriconazole, respectively. Finally, we show with our best derivative (8) that the mechanism of action of our compounds is not the inhibition of ergosterol biosynthesis, but that it involves ROS production in yeast cells.
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Affiliation(s)
- Nishad Thamban Chandrika
- Department of Pharmaceutical Sciences, College of Pharmacy, University of Kentucky, Lee T. Todd, Jr. Building, 789 South Limestone Street, Lexington, Kentucky 40536-0596, United States
| | - Sanjib K. Shrestha
- Department of Pharmaceutical Sciences, College of Pharmacy, University of Kentucky, Lee T. Todd, Jr. Building, 789 South Limestone Street, Lexington, Kentucky 40536-0596, United States
| | - Nihar Ranjan
- Department of Chemistry, Clemson University, 219 Hunter Laboratories, Clemson, South Carolina 29634, United States
| | - Anindra Sharma
- Department of Chemistry, Clemson University, 219 Hunter Laboratories, Clemson, South Carolina 29634, United States
| | - Dev P. Arya
- Department of Chemistry, Clemson University, 219 Hunter Laboratories, Clemson, South Carolina 29634, United States
| | - Sylvie Garneau-Tsodikova
- Department of Pharmaceutical Sciences, College of Pharmacy, University of Kentucky, Lee T. Todd, Jr. Building, 789 South Limestone Street, Lexington, Kentucky 40536-0596, United States
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7
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Ranjan N, Story S, Fulcrand G, Leng F, Ahmad M, King A, Sur S, Wang W, Tse-Dinh YC, Arya DP. Selective Inhibition of Escherichia coli RNA and DNA Topoisomerase I by Hoechst 33258 Derived Mono- and Bisbenzimidazoles. J Med Chem 2017; 60:4904-4922. [DOI: 10.1021/acs.jmedchem.7b00191] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Affiliation(s)
- Nihar Ranjan
- Laboratory
of Medicinal Chemistry, Department of Chemistry, Clemson University, Clemson, South Carolina 29634, United States
| | - Sandra Story
- NUBAD LLC, 900B West Faris
Road, Greenville, South Carolina 29605, United States
| | - Geraldine Fulcrand
- Department
of Chemistry and Biochemistry, Florida International University, Miami, Florida 33199, United States
- Biomolecular
Sciences Institute, Florida International University, Miami, Florida 33199, United States
| | - Fenfei Leng
- Department
of Chemistry and Biochemistry, Florida International University, Miami, Florida 33199, United States
- Biomolecular
Sciences Institute, Florida International University, Miami, Florida 33199, United States
| | - Muzammil Ahmad
- Genome
Instability and Chromatin Remodeling Section, Lab of Genetics, National
Institute on Aging, National Institutes of Health, 251 Bayview Boulevard, Baltimore, Maryland 21224, United States
| | - Ada King
- NUBAD LLC, 900B West Faris
Road, Greenville, South Carolina 29605, United States
| | - Souvik Sur
- Laboratory
of Medicinal Chemistry, Department of Chemistry, Clemson University, Clemson, South Carolina 29634, United States
| | - Weidong Wang
- Genome
Instability and Chromatin Remodeling Section, Lab of Genetics, National
Institute on Aging, National Institutes of Health, 251 Bayview Boulevard, Baltimore, Maryland 21224, United States
| | - Yuk-Ching Tse-Dinh
- Department
of Chemistry and Biochemistry, Florida International University, Miami, Florida 33199, United States
- Biomolecular
Sciences Institute, Florida International University, Miami, Florida 33199, United States
| | - Dev P. Arya
- Laboratory
of Medicinal Chemistry, Department of Chemistry, Clemson University, Clemson, South Carolina 29634, United States
- NUBAD LLC, 900B West Faris
Road, Greenville, South Carolina 29605, United States
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8
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Özil M, Emirik M, Beldüz A, Ülker S. Molecular docking studies and synthesis of novel bisbenzimidazole derivatives as inhibitors of α-glucosidase. Bioorg Med Chem 2016; 24:5103-5114. [DOI: 10.1016/j.bmc.2016.08.024] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2016] [Revised: 07/26/2016] [Accepted: 08/18/2016] [Indexed: 11/27/2022]
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9
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Synthesis and investigation of novel benzimidazole derivatives as antifungal agents. Bioorg Med Chem 2016; 24:3680-6. [PMID: 27301676 DOI: 10.1016/j.bmc.2016.06.010] [Citation(s) in RCA: 62] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2016] [Revised: 05/27/2016] [Accepted: 06/03/2016] [Indexed: 01/02/2023]
Abstract
The rise and emergence of resistance to antifungal drugs by diverse pathogenic fungal strains have resulted in an increase in demand for new antifungal agents. Various heterocyclic scaffolds with different mechanisms of action against fungi have been investigated in the past. Herein, we report the synthesis and antifungal activities of 18 alkylated mono-, bis-, and trisbenzimidazole derivatives, their toxicities against mammalian cells, as well as their ability to induce reactive oxygen species (ROS) in yeast cells. Many of our bisbenzimidazole compounds exhibited moderate to excellent antifungal activities against all tested fungal strains, with MIC values ranging from 15.6 to 0.975μg/mL. The fungal activity profiles of our bisbenzimidazoles were found to be dependent on alkyl chain length. Our most potent compounds were found to display equal or superior antifungal activity when compared to the currently used agents amphotericin B, fluconazole, itraconazole, posaconazole, and voriconazole against many of the strains tested.
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10
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Sato N, Tsuji G, Sasaki Y, Usami A, Moki T, Onizuka K, Yamada K, Nagatsugi F. A new strategy for site-specific alkylation of DNA using oligonucleotides containing an abasic site and alkylating probes. Chem Commun (Camb) 2016; 51:14885-8. [PMID: 26304997 DOI: 10.1039/c5cc03915k] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Abstract
Selective chemical reactions with DNA, such as its labelling, are very useful in many applications. In this paper, we discuss a new strategy for the selective alkylation of DNA using an oligonucleotide containing an abasic site and alkylating probes. We designed three probes consisting of 2-AVP as a reactive moiety and three kinds of binding moiety with high affinity to duplex DNA. Among these probes, Hoechst-AVP probe exhibited high selectivity and efficient reactivity to thymine bases at the site opposite an abasic site in DNA. Our method is potentially useful for inducing site-directed reactions aimed at inhibiting polymerase reactions.
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Affiliation(s)
- Norihiro Sato
- Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, 2-1-1 Katahira, Aoba-ku, Sendai-shi, 980-8577, Japan.
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11
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Singla P, Luxami V, Paul K. Triazine–benzimidazole conjugates: synthesis, spectroscopic and molecular modelling studies for interaction with calf thymus DNA. RSC Adv 2016. [DOI: 10.1039/c5ra24001h] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023] Open
Abstract
Triazine–benzimidazole analogues with different substitutions of primary and secondary amines as well as aryl groups were synthesized and studied their interactions with calf thymus DNA.
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Affiliation(s)
- Prinka Singla
- School of Chemistry and Biochemistry
- Thapar University
- Patiala-147004
- India
| | - Vijay Luxami
- School of Chemistry and Biochemistry
- Thapar University
- Patiala-147004
- India
| | - Kamaldeep Paul
- School of Chemistry and Biochemistry
- Thapar University
- Patiala-147004
- India
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12
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Nagatsugi F. Development of the Strategy for Chemical Modifications to Nucleic Acids. J SYN ORG CHEM JPN 2016. [DOI: 10.5059/yukigoseikyokaishi.74.494] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Fumi Nagatsugi
- Institute of Multidisciplinary Research for Advanced Materials, Tohoku University
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13
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Ranjan N, Fulcrand G, King A, Brown J, Jiang X, Leng F, Arya DP. Selective Inhibition of Bacterial Topoisomerase I by alkynyl-bisbenzimidazoles. MEDCHEMCOMM 2014; 5:816-825. [PMID: 25083189 DOI: 10.1039/c4md00140k] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Hoechst dyes are well known DNA binders that non-selectively inhibit the function of mammalian topoisomerase I and II. Herein, we show that Hoechst 33258 based bisbenzimidazoles (DPA 151-154), containing a terminal alkyne, are effective and selective inhibitors of E. coli. topoisomerase I. These bisbenzimidazoles displayed topoisomerase I inhibition much better than Hoechst 33342 or Hoechst 33258 with IC50 values in the range of 2.47-6.63 μM. Bisbenzimidazoles DPA 151-154 also display selective inhibition of E. coli. topoisomerase I over DNA gyrase and Human topoisomerases I and II, and effectively inhibit bacterial growth.
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Affiliation(s)
- Nihar Ranjan
- Department of Chemistry, Clemson University, Clemson, South Carolina, Unite States 29634
| | - Geraldine Fulcrand
- Department of Chemistry and Biochemistry, Florida International University, Miami, Florida 33199 (Unite States)
| | - Ada King
- NUBAD, LLC, 900 B West Faris Road, Greenville, South Carolina 29605
| | - Joseph Brown
- Department of Biological Sciences, Clemson University, Clemson, South Carolina 29634
| | - Xiuping Jiang
- Department of Biological Sciences, Clemson University, Clemson, South Carolina 29634
| | - Fenfei Leng
- Department of Chemistry and Biochemistry, Florida International University, Miami, Florida 33199 (Unite States)
| | - Dev P Arya
- Department of Chemistry, Clemson University, Clemson, South Carolina, Unite States 29634 ; NUBAD, LLC, 900 B West Faris Road, Greenville, South Carolina 29605
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14
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Ranjan N, Kumar S, Watkins D, Wang D, Appella DH, Arya DP. Recognition of HIV-TAR RNA using neomycin-benzimidazole conjugates. Bioorg Med Chem Lett 2013; 23:5689-93. [PMID: 24012122 PMCID: PMC4048829 DOI: 10.1016/j.bmcl.2013.08.014] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2013] [Revised: 07/30/2013] [Accepted: 08/05/2013] [Indexed: 10/26/2022]
Abstract
Synthesis of a novel class of compounds and their biophysical studies with TAR-RNA are presented. The synthesis of these compounds was achieved by conjugating neomycin, an aminoglycoside, with benzimidazoles modeled from a B-DNA minor groove binder, Hoechst 33258. The neomycin-benzimidazole conjugates have varying linkers that connect the benzimidazole and neomycin units. The linkers of varying length (5-23 atoms) in these conjugates contain one to three triazole units. The UV thermal denaturation experiments showed that the conjugates resulted in greater stabilization of the TAR-RNA than either neomycin or benzimidazole used in the synthesis of conjugates. These results were corroborated by the FID displacement and tat-TAR inhibition assays. The binding of ligands to the TAR-RNA is affected by the length and composition of the linker. Our results show that increasing the number of triazole groups and the linker length in these compounds have diminishing effect on the binding to TAR-RNA. Compounds that have shorter linker length and fewer triazole units in the linker displayed increased affinity towards the TAR RNA.
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Affiliation(s)
- Nihar Ranjan
- Laboratory of Medicinal Chemistry, Department of Chemistry, Clemson University, Clemson, South Carolina , United States 29634
| | - Sunil Kumar
- Laboratory of Medicinal Chemistry, Department of Chemistry, Clemson University, Clemson, South Carolina , United States 29634
| | - Derrick Watkins
- NUBAD LLC, 900 B West Faris Road, Greenville, SC 29630, United States
| | - Deyun Wang
- Laboratory of Bioorganic Chemistry, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health,Bethesda, Maryland 20892, United States
| | - Daniel H. Appella
- Laboratory of Bioorganic Chemistry, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health,Bethesda, Maryland 20892, United States
| | - Dev P. Arya
- Laboratory of Medicinal Chemistry, Department of Chemistry, Clemson University, Clemson, South Carolina , United States 29634
- NUBAD LLC, 900 B West Faris Road, Greenville, SC 29630, United States
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15
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Mamedov VA, Zhukova NA, Syakaev VV, Gubaidullin AT, Beschastnova TN, Adgamova DI, Samigullina AI, Latypov SK. A new facile, efficient synthesis and structure peculiarity of quinoxaline derivatives with two benzimidazole fragments. Tetrahedron 2013. [DOI: 10.1016/j.tet.2012.10.045] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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16
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Pizzetti M, De Luca E, Petricci E, Porcheddu A, Taddei M. A General Approach to Substituted Benzimidazoles and Benzoxazoles
via
Heterogeneous Palladium‐Catalyzed Hydrogen‐Transfer with Primary Amines. Adv Synth Catal 2012. [DOI: 10.1002/adsc.201200253] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Marianna Pizzetti
- Dipartimento Farmaco Chimico Tecnologico, Università degli Studi di Siena, Via A. Moro 2, 53100 Siena, Italy, Fax: (+39)‐0577234333
| | - Elisa De Luca
- Dipartimento Farmaco Chimico Tecnologico, Università degli Studi di Siena, Via A. Moro 2, 53100 Siena, Italy, Fax: (+39)‐0577234333
| | - Elena Petricci
- Dipartimento Farmaco Chimico Tecnologico, Università degli Studi di Siena, Via A. Moro 2, 53100 Siena, Italy, Fax: (+39)‐0577234333
| | - Andrea Porcheddu
- Dipartimento di Chimica, Università degli Studi di Sassari, Via Vienna 2, 07100 Sassari, Italy
| | - Maurizio Taddei
- Dipartimento Farmaco Chimico Tecnologico, Università degli Studi di Siena, Via A. Moro 2, 53100 Siena, Italy, Fax: (+39)‐0577234333
- Istituto di Chimica dei Composti Organometallici (ICCOM‐CNR), Via Madonna del Piano 10, 50019 Sesto Fiorentino (FI), Italy
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17
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Affiliation(s)
- Matthew C. Davis
- a Chemistry and Materials Division, Michelson Laboratory, Naval Air Warfare Center , China Lake , California , USA
| | - Thomas J. Groshens
- a Chemistry and Materials Division, Michelson Laboratory, Naval Air Warfare Center , China Lake , California , USA
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18
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Li L, Cao W, Zheng W, Fan C, Chen T. Ruthenium complexes containing 2,6-bis(benzimidazolyl)pyridine derivatives induce cancer cell apoptosis by triggering DNA damage-mediated p53 phosphorylation. Dalton Trans 2012; 41:12766-72. [DOI: 10.1039/c2dt30665d] [Citation(s) in RCA: 53] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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19
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20
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Catalyst/ligand-free synthesis of benzimidazoles and quinazolinones from amidines via intramolecular transamination reaction. Tetrahedron Lett 2010. [DOI: 10.1016/j.tetlet.2010.02.019] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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21
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Jain AK, Gupta SK, Tandon V. Evaluation of Electronic Effect of Phenyl Ring Substituents on the DNA Minor Groove Binding Properties of Novel Bis and Terbenzimidazoles: Synthesis and Spectroscopic Studies of Ligand-DNA Interaction. Oligonucleotides 2009; 19:329-40. [DOI: 10.1089/oli.2009.0190] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Affiliation(s)
- Akash K. Jain
- Dr. B.R. Ambedkar Center for Biomedical Research, University of Delhi, Delhi, India
| | - Sharad K. Gupta
- Dr. B.R. Ambedkar Center for Biomedical Research, University of Delhi, Delhi, India
| | - Vibha Tandon
- Dr. B.R. Ambedkar Center for Biomedical Research, University of Delhi, Delhi, India
- Department of Chemistry, University of Delhi, Delhi, India
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22
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Bazhulina NP, Nikitin AM, Rodin SA, Surovaya AN, Kravatsky YV, Pismensky VF, Archipova VS, Martin R, Gursky GV. Binding of Hoechst 33258 and its derivatives to DNA. J Biomol Struct Dyn 2009; 26:701-18. [PMID: 19385699 DOI: 10.1080/07391102.2009.10507283] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
Abstract
In the present work, we employed UV-VIS spectroscopy, fluorescence methods, and circular dichroism spectroscopy (CD) to study the interaction of dye Hoechst 33258, Hoechst 33342, and their derivatives to poly[d(AT)].poly[d(AT)], poly(dA).poly(dT), and DNA dodecamer with the sequence 5'-CGTATATATACG-3'. We identified three types of complexes formed by Hoechst 33258, Hoechst 33342, and methylproamine with DNA, corresponding to the binding of each drug in monomer, dimer, and tetramer forms. In a dimer complex, two dye molecules are sandwiched in the same place of the minor DNA groove. Our data show that Hoechst 33258, Hoechst 33342, and methylproamine also form complexes of the third type that reflects binding of dye associates (probably tetramers) to DNA. Substitution of a hydrogen atom in the ortho position of the phenyl ring by a methyl group has a little effect on binding of monomers to DNA. However it reduces strength of binding of tetramers to DNA. In contrast, a Hoechst derivative containing the ortho-isopropyl group in the phenyl ring exhibits a low affinity to poly(dA).poly(dT) and poly[d(AT)].poly[d(AT)] and binds to DNA only in the monomer form. This can be attributed to a sterical hindrance caused by the ortho-isopropyl group for side-by-side accommodation of two dye molecules in the minor groove. Our experiments show that mode of binding of Hoechst 33258 derivatives and their affinity for DNA depend on substituents in the ortho position of the phenyl ring of the dye molecule. A statistical mechanical treatment of binding of Hoechst 33258 and its derivatives to a polynucleotide lattice is described and used for determination of binding parameters of Hoechst 33258 and its derivatives to poly[d(AT)].poly[d(AT)] and poly(dA).poly(dT).
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Affiliation(s)
- N P Bazhulina
- V. A. Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow 119991, Russia
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Chang CM, Kulkarni MV, Chen CH, Wang CH, Sun CM. Parallel Synthesis of 2-Sulphanylated Bis-benzimidazoles on Soluble Polymer Support. ACTA ACUST UNITED AC 2008; 10:466-74. [PMID: 18407696 DOI: 10.1021/cc7002045] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
Affiliation(s)
- Chia-Mao Chang
- Department of Applied Chemistry, National Chiao Tung University, Hsinchu 300-10, Taiwan, ROC, and Department of Applied Science, National Taitung University, Taitung 950, Taiwan, ROC
| | - Manohar V. Kulkarni
- Department of Applied Chemistry, National Chiao Tung University, Hsinchu 300-10, Taiwan, ROC, and Department of Applied Science, National Taitung University, Taitung 950, Taiwan, ROC
| | - Chih-Hau Chen
- Department of Applied Chemistry, National Chiao Tung University, Hsinchu 300-10, Taiwan, ROC, and Department of Applied Science, National Taitung University, Taitung 950, Taiwan, ROC
| | - Chi-Hsiang Wang
- Department of Applied Chemistry, National Chiao Tung University, Hsinchu 300-10, Taiwan, ROC, and Department of Applied Science, National Taitung University, Taitung 950, Taiwan, ROC
| | - Chung-Ming Sun
- Department of Applied Chemistry, National Chiao Tung University, Hsinchu 300-10, Taiwan, ROC, and Department of Applied Science, National Taitung University, Taitung 950, Taiwan, ROC
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Chenoweth DM, Poposki JA, Marques MA, Dervan PB. Programmable oligomers targeting 5'-GGGG-3' in the minor groove of DNA and NF-kappaB binding inhibition. Bioorg Med Chem 2006; 15:759-70. [PMID: 17095230 PMCID: PMC3208330 DOI: 10.1016/j.bmc.2006.10.051] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2006] [Revised: 10/23/2006] [Accepted: 10/23/2006] [Indexed: 11/24/2022]
Abstract
A series of hairpin oligomers containing benzimidazole (Bi) and imidazopyridine (Ip) rings were synthesized and screened to target 5'-WGGGGW-3', a core sequence in the DNA-binding site of NF-kappaB, a prolific transcription factor important in biology and disease. Five Bi and Ip containing oligomers bound to the 5'-WGGGGW-3' site with high affinity. One of the oligomers (Im-Im-Im-Im-gamma-Py-Bi-Py-Bi-beta-Dp) was able to inhibit DNA binding by the transcription factor NF-kappaB.
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Charton J, Girault-Mizzi S, Debreu-Fontaine MA, Foufelle F, Hainault I, Bizot-Espiard JG, Caignard DH, Sergheraert C. Synthesis and biological evaluation of benzimidazole derivatives as potent AMP-activated protein kinase activators. Bioorg Med Chem 2006; 14:4490-518. [PMID: 16513356 DOI: 10.1016/j.bmc.2006.02.028] [Citation(s) in RCA: 53] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2005] [Revised: 02/08/2006] [Accepted: 02/14/2006] [Indexed: 12/22/2022]
Abstract
Design, synthesis and structure-activity relationships of benzimidazole derivatives as activators of the AMP-activated protein kinase (AMPK) are presented in this paper. AMPK is the central component of a protein kinase cascade that plays a key role in the regulation of energy balance. Once activated, AMPK initiates a series of responses that are aimed at restoring the energy balance of the cell and recent studies have indicated that AMPK plays an important role in regulation of the whole-body energy metabolism. The following study based on the lead compound S27847 involved modification of three regions of this compound. Preliminary structure-activity relationships are being described.
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Affiliation(s)
- Julie Charton
- UMR CNRS 8525, Universite de Lille II, Institut de Biologie et Institut Pasteur de Lille, France.
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Disney MD, Stephenson R, Wright TW, Haidaris CG, Turner DH, Gigliotti F. Activity of Hoechst 33258 against Pneumocystis carinii f. sp. muris, Candida albicans, and Candida dubliniensis. Antimicrob Agents Chemother 2005; 49:1326-30. [PMID: 15793106 PMCID: PMC1068638 DOI: 10.1128/aac.49.4.1326-1330.2005] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Hoechst 33258 is a compound that binds nucleic acids. We report that Hoechst 33258 exhibits antimicrobial activity against Pneumocystis carinii f. sp. muris in a mouse model for P. carinii pneumonia and against Candida albicans and Candida dubliniensis in vitro. Relative to saline treatment, a 14-day, daily treatment of mice with 37.5 mg of Hoechst 33258/kg of body weight after inoculation with P. carinii reduced by about 100-fold the number of P. carinii organisms detected by either PCR or by microscopy after silver staining. For comparison, treatment based on a dose of 15 to 20 mg of the trimethoprim component in trimethoprim-sulfamethoxazole/kg reduced the number of P. carinii by about fourfold. In vitro inhibition of P. carinii group I intron splicing was observed with a 50% inhibitory concentration (IC50) of 30 microM in 2 or 4 mM Mg2+, suggesting RNA as a possible target. However, Hoechst 33258 inhibits growth of Candida strains with and without group I introns. IC50s ranged from 1 to 9 microM for strains with group I introns and were 12 and 32 microM for two strains without group I introns. These studies demonstrate that compounds that bind fungal nucleic acids have the potential to be developed as new therapeutics for Pneumocystis and possibly other fungi, especially if they could be directed to structures that are not present in mammalian cells, such as self-splicing introns.
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Affiliation(s)
- Matthew D Disney
- Department of Chemistry, School of Medicine and Dentistry, University of Rochester, Rochester, New York 14642, USA
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Briehn CA, Weyermann P, Dervan PB. Alternative heterocycles for DNA recognition: the benzimidazole/imidazole pair. Chemistry 2003; 9:2110-22. [PMID: 12740860 DOI: 10.1002/chem.200204689] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
Boc-protected benzimidazole-pyrrole, benzimidazole-imidazole, and benzimidazole-methoxypyrrole amino acids were synthesized and incorporated into DNA binding polyamides, comprised of N-methyl pyrrole and N-methyl imidazole amino acids, by means of solid-phase synthesis on an oxime resin. These hairpin polyamides were designed to determine the DNA recognition profile of a side-by-side benzimidazole/imidazole pair for the designated six base pair recognition sequence. Equilibrium association constants of the polyamide-DNA complexes were determined at two of the six base pair positions of the recognition sequence by quantitative DNase I footprinting titrations on DNA fragments each containing matched and single base pair mismatched binding sites. The results indicate that the benzimidazole-heterocycle building blocks can replace pyrrole-pyrrole, pyrrole-imidazole, and pyrrole-hydroxypyrrole constructs while retaining relative site specifities and subnanomolar match site affinities. The benzimidazole-containing hairpin polyamides represent a novel class of DNA binding ligands featuring tunable target recognition sequences combined with the favorable properties of the benzimidazole type DNA minor groove binders.
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Affiliation(s)
- Christoph A Briehn
- Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, CA 91125, USA
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