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Dhal A, Nayim S, Pattanayek S, Khatun M, Barman S, Paria S, Shit B, Kundu S, Jha PK, Hossain M. Evaluation of calf thymus DNA binding of newly synthesize five 9 O Imidazolyl alkyl berberine derivative: A comparative multi-spectroscopic and calorimetric study. Int J Biol Macromol 2023; 253:126958. [PMID: 37739293 DOI: 10.1016/j.ijbiomac.2023.126958] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2023] [Revised: 09/07/2023] [Accepted: 09/13/2023] [Indexed: 09/24/2023]
Abstract
DNA binding with small molecule plays an important role in the designing of various anticancer drugs with greater efficacy. The five 9-O-imidazolyl alkyl berberine derivatives (BI) of different chain length has been synthesized and fully characterized. The binding study of calf thymus DNA with these newly synthesized berberine derivative was performed using various biophysical techniques. The binding affinity of BI to calf thymus DNA increased with increasing the chain length. The binding constant value obtained from UV-Vis spectral analysis was 1.84x105for BI1, 2.01x105for BI2, 1.51 × 106 for BI3, 3.66 × 106 for BI4, 6.68 × 106. Partial intercalative binding with strong stabilization of the DNA helix was revealed from circular dichroism spectral study and viscosity measurement. From the ITC experiment it was revealed that the bindings of BI1, BI2, BI3, BI4 and BI5 to calf thymus DNA were favoured by a large positive favourable entropy and negative enthalpy change and the highest spontaneity found for BI5. With the increase in chain length the binding was driven by a stronger entropy term with a higher binding constant indicates involvement of hydrophobic force for all these interaction. High binding affinities of calf thymus DNA with berberine-imidazole derivatives might be helpful for new drug design.
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Affiliation(s)
- Asima Dhal
- Department of Chemistry, Vidyasagar University, Midnapore - 721102, West Bengal, India
| | - Sk Nayim
- Department of Chemistry, Vidyasagar University, Midnapore - 721102, West Bengal, India
| | - Swadesh Pattanayek
- Department of Chemistry, Vidyasagar University, Midnapore - 721102, West Bengal, India
| | - Munira Khatun
- Department of Chemistry, Vidyasagar University, Midnapore - 721102, West Bengal, India
| | - Subhajit Barman
- Department of Chemistry, Vidyasagar University, Midnapore - 721102, West Bengal, India
| | - Samaresh Paria
- Department of Chemistry, Vidyasagar University, Midnapore - 721102, West Bengal, India
| | - Basudev Shit
- Department of Chemistry, Vidyasagar University, Midnapore - 721102, West Bengal, India
| | - Somenath Kundu
- Department of Chemistry, Vidyasagar University, Midnapore - 721102, West Bengal, India
| | - Pradeep K Jha
- Research and Development, Ghaziabad, ACE Green Recycling Inc, Singapore
| | - Maidul Hossain
- Department of Chemistry, Vidyasagar University, Midnapore - 721102, West Bengal, India.
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Sun TT, Man RJ, Shi JY, Wang X, Zhao M, Hu HY, Wang CY. A selective fluorescent probe for hydrogen sulfide from a series of flavone derivatives and intracellular imaging. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2023; 299:122840. [PMID: 37196554 DOI: 10.1016/j.saa.2023.122840] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/02/2023] [Revised: 05/01/2023] [Accepted: 05/06/2023] [Indexed: 05/19/2023]
Abstract
In this work, through the orthogonal design of two fluorophores and two recognition groups, a series of fluorescent probes were developed from the flavone derivatives for hydrogen sulfide (H2S). The probe FlaN-DN stood out from the primarily screening on the selectivity and response intensities. It could respond to H2S with both the chromogenic and fluorescent signals. Among the recent reported probes for the H2S detection, FlaN-DN indicated the most highlighted advantages including the rapid response (within 200 s) and the high response multiplication (over 100 folds). FlaN-DN was sensitive to the pH condition, thus could be applied to distinguish the cancer micro-environment. Moreover, FlaN-DN suggested practical capabilities including a wide linear range (0-400 μM), a relatively high sensitivity (limit of detection 0.13 μM), and high selectivity towards H2S. As a low cytotoxic probe, FlaN-DN achieved the imaging in living HeLa cells. FlaN-DN could detect the endogenous generation H2S and visualize the dose-dependent responses to the exogenous H2S level. This work provided a typical case of natural-sourced derivatives as functional implements, which might inspire the future investigations.
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Affiliation(s)
- Ting-Ting Sun
- Jinhua Advanced Research Institute, Jinhua 321019, China
| | - Ruo-Jun Man
- Guangxi Key Laboratory for Polysaccharide Materials and Modifications, Guangxi Minzu University, Nanning 530008, China.
| | - Jing-Yi Shi
- Jinhua Advanced Research Institute, Jinhua 321019, China
| | - Xiao Wang
- Jinhua Advanced Research Institute, Jinhua 321019, China
| | - Min Zhao
- Jinhua Advanced Research Institute, Jinhua 321019, China; School of Pharmaceutical and Materials Engineering, Taizhou University, Taizhou 318000, Zhejiang, China
| | - Hong-Yu Hu
- Xingzhi College, Zhejiang Normal University, Lanxi 321100, Zhejiang, China.
| | - Chao-Yue Wang
- Jinhua Advanced Research Institute, Jinhua 321019, China.
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Luikham S, Bhattacharyya J. Targeting Natural Polymeric DNAs with Harmane: An Insight into Binding and Thermodynamic Interaction Through Biophysical Approach. DNA Cell Biol 2022; 41:91-102. [PMID: 35049377 DOI: 10.1089/dna.2021.0132] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023] Open
Abstract
DNA is one of the major molecular targets for a broad range of anticancer drugs. Hence, interaction studies involving cellular DNA and small molecules can be highly beneficial as they often lead to rational and efficient drug design. In this study, the binding interaction of Harmane (a naturally occurring, bioactive indole alkaloid) with two natural polymeric DNAs, that is, Calf thymus (CT) DNA and Herring testis (HT) DNA has been elucidated using biophysical techniques. A ground state, 1:1 complexation, was revealed by steady-state fluorescence spectroscopy. The thermodynamic profile and energetics of the associated reaction were evaluated by temperature-dependent fluorescence spectroscopy. The spontaneity of the binding was confirmed by the negative ΔG° values in both cases. Negative enthalpy change, along with stronger positive entropic contribution, indicated the dominant electrostatic nature of the interaction and finally the entropy-driven exothermic binding process throughout. Salt-dependent studies further demonstrated the significant contribution of electrostatic interactions in ligand binding toward DNA. Infrared data substantiated the structural information of the said interactions, leading to the exploration of the structure-function relationship.
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Affiliation(s)
- Soching Luikham
- Department of Chemistry, National Institute of Technology Nagaland, Chumukedima, Dimapur, India
| | - Jhimli Bhattacharyya
- Department of Chemistry, National Institute of Technology Nagaland, Chumukedima, Dimapur, India
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Liu TZ, Cui XL, Sun WL, Miao JY, Zhao BX, Lin ZM. Two simple but effective turn-on benzothiazole-based fluorescent probes for detecting hydrogen sulfide in real water samples and HeLa cells. Anal Chim Acta 2022; 1189:339225. [PMID: 34815049 DOI: 10.1016/j.aca.2021.339225] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2021] [Revised: 10/13/2021] [Accepted: 10/28/2021] [Indexed: 11/01/2022]
Abstract
Two simple turn-on fluorescent probes, containing a benzothiazole and the 2,4-dinitrobenzenesulfonyl group, were designed for detecting H2S. Two probes exhibited good selectivity and high sensitivity, which were applied to detect the H2S in real water samples. Probe P2 with a positive charge had better solubility than probe P1 in water; therefore, probe P2 was successfully applied to detect both the endogenous and exogenous H2S in lysosomes of living HeLa cells.
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Affiliation(s)
- Tian-Zhen Liu
- Institute of Organic Chemistry, School of Chemistry and Chemical Engineering, Shandong University, Jinan, 250100, PR China
| | - Xiao-Ling Cui
- Shandong Provincial Key Laboratory of Animal Cells and Developmental Biology, School of Life Science, Shandong University, Qingdao, 266237, PR China
| | - Wen-Long Sun
- Institute of Organic Chemistry, School of Chemistry and Chemical Engineering, Shandong University, Jinan, 250100, PR China
| | - Jun-Ying Miao
- Shandong Provincial Key Laboratory of Animal Cells and Developmental Biology, School of Life Science, Shandong University, Qingdao, 266237, PR China
| | - Bao-Xiang Zhao
- Institute of Organic Chemistry, School of Chemistry and Chemical Engineering, Shandong University, Jinan, 250100, PR China.
| | - Zhao-Min Lin
- Institute of Medical Science, The Second Hospital of Shandong University, Jinan, 250033, PR China.
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Liu Y, Ren X, He L. First-principles study of benzo[a]pyrene-7,8-dione and DNA adducts. J Chem Phys 2021; 154:175102. [PMID: 34241046 DOI: 10.1063/5.0046360] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Polycyclic aromatic hydrocarbons (PAHs) are widely distributed in environments, and some of them are causative agents of human cancer. Previous studies concluded that benzo[a]pyrene-7,8-dione (BPQ), which is one kind of carcinogenic PAH metabolites, forms covalently bonded adducts with DNA, and the major adduct formed is a deoxyguanosine adduct. In this work, we investigate the interactions between BPQ and DNA molecules via first-principles calculations. We identify six possible DNA adducts with BPQ. In addition to the four adducts forming covalent bonds, there are two adducts bound purely by van der Waals (vdW) interactions. Remarkably, the two vdW-bound adducts have comparable, if not larger, binding energies as the covalent adducts. The results may help us gain more understanding of the interactions between PAH metabolites and DNA.
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Affiliation(s)
- Yue Liu
- CAS Key Laboratory of Quantum Information, University of Science and Technology of China, Hefei 230026, Anhui, China
| | - Xinguo Ren
- Beijing National Laboratory for Condensed Matter Physics, Institute of Physics, Chinese Academy of Sciences, Beijing 100190, China
| | - Lixin He
- CAS Key Laboratory of Quantum Information, University of Science and Technology of China, Hefei 230026, Anhui, China
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Hydrophobic ring substitution on 9-O position of berberine act as a selective fluorescent sensor for the recognition of bovine serum albumin. Microchem J 2020. [DOI: 10.1016/j.microc.2019.104453] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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Jana GC, Nayim S, Sahoo NK, Das S, Aktara MN, Patra A, Islam MM, Hossain M. Deciphering the positional impact of chlorine in a new series of berberine analogues towards the superb-selective “turn-on” hydrophobic signaling of bovine serum albumin at physiological pH. NEW J CHEM 2020. [DOI: 10.1039/c9nj05642d] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
We report a new 9-O-benzyl substituted berberine analogue for the selective detection of BSA with a limit of detection value of 3.30 nM.
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Affiliation(s)
- Gopal Chandra Jana
- Department of Chemistry and Chemical Technology
- Vidyasagar University
- Midnapore
- India
| | - Sk Nayim
- Department of Chemistry and Chemical Technology
- Vidyasagar University
- Midnapore
- India
| | - Nandan Kumar Sahoo
- Department of Chemistry and Chemical Technology
- Vidyasagar University
- Midnapore
- India
| | - Somnath Das
- Department of Chemistry and Chemical Technology
- Vidyasagar University
- Midnapore
- India
| | - Mt Nasima Aktara
- Department of Chemistry and Chemical Technology
- Vidyasagar University
- Midnapore
- India
| | - Anirudha Patra
- Department of Chemistry and Chemical Technology
- Vidyasagar University
- Midnapore
- India
| | | | - Maidul Hossain
- Department of Chemistry and Chemical Technology
- Vidyasagar University
- Midnapore
- India
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