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Interactions of porphyrins with DNA: A review focusing recent advances in chemical modifications on porphyrins as artificial nucleases. J Inorg Biochem 2021; 219:111434. [PMID: 33819802 DOI: 10.1016/j.jinorgbio.2021.111434] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/11/2020] [Revised: 03/18/2021] [Accepted: 03/18/2021] [Indexed: 12/14/2022]
Abstract
The advance of porphyrins as artificial nucleases along the years have developed a class of compounds having potential therapeutic applications. Being an extrovert of chemistry, a variety of chemical modifications have been done on porphyrin macrocycle in order to improve the spectroscopic properties and to adapt as artificial receptors that can recognize molecules. The last twenty years has witnessed broad research in the arena of porphyrin- DNA interactions and their evolution from simple to more complex entities. In this review, we summarize the recent advances in the porphyrin-based structural modifications, with a specific emphasis on various effects of porphyrin on DNA cleavage potency. We particularly detailed the nuclease activity of cationic and anionic porphyrins, porphyrin dimers and conjugates as well as heme proteins till the third generation porphyrins as artificial nucleases.
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Shahabadi N, Zendehcheshm S, Momeni BZ, Abbasi R. Antiproliferative activity and human serum albumin binding propensity of [SnMe2Cl2(bu2bpy)]: multi-spectroscopic analysis, atomic force microscopy, and computational studies. J COORD CHEM 2020. [DOI: 10.1080/00958972.2020.1775821] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Affiliation(s)
- Nahid Shahabadi
- Department of Inorganic Chemistry, Faculty of Chemistry, Razi University, Kermanshah, Iran
- Medical Biology Research Center (MBRC), Kermanshah University of Medical Sciences, Kermanshah, Iran
| | - Saba Zendehcheshm
- Department of Inorganic Chemistry, Faculty of Chemistry, Razi University, Kermanshah, Iran
| | - Badri Z Momeni
- Faculty of Chemistry, KN Toosi University of Technology, Tehran, Iran
| | - Reyhaneh Abbasi
- Faculty of Chemistry, KN Toosi University of Technology, Tehran, Iran
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3
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Spectroscopic, thermodynamic and molecular docking studies on the interaction of two water-soluble asymmetric cationic porphyrins with calf thymus DNA. JOURNAL OF THE IRANIAN CHEMICAL SOCIETY 2019. [DOI: 10.1007/s13738-019-01609-2] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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4
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Investigations of the molecular interactions between nisoldipine and human serum albumin in vitro using multi-spectroscopy, electrochemistry and docking studies. J Mol Liq 2018. [DOI: 10.1016/j.molliq.2018.03.010] [Citation(s) in RCA: 34] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
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Moradi SZ, Moradi S, Nowroozi A, Sadrjavadi K, Farhadian N, Ehzari H, Shahlaei M. Insights from a combination of theoretical and experimental methods for probing the biomolecular interactions between human serum albumin and clomiphene. RSC Adv 2018; 8:40663-40675. [PMID: 35557910 PMCID: PMC9091486 DOI: 10.1039/c8ra08237e] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2018] [Accepted: 11/15/2018] [Indexed: 11/21/2022] Open
Abstract
In this study, the interaction of clomiphene (CLO), a non-steroidal and ovulatory stimulant drug employed in the treatment of infertility, with human serum albumin (HSA), the most abundant plasma transport protein, was investigated using spectrofluorometric, FT-IR, UV-Vis, and molecular modeling methods. The obtained results indicated that the binding of CLO to HSA led to intense fluorescence quenching of HSA via a static quenching mechanism, and that the process of CLO binding to HSA was enthalpy driven. By using experimental and theoretical methods, it was confirmed that as a result of binding CLO, slight conformational changes in HSA occurred. Also, the negative ΔH of interaction indicated that the binding of CLO with HSA was mainly enthalpy driven. The experimental and computational results suggested that hydrogen bonds and van der Waals interactions played a major role in the binding, with overall binding constants of K = 3.67 × 109 M−1 at 286 K and 6.52 × 105 mol L−1 at 310 K. Moreover, the results of molecular modeling showed that Asp234, Phe228, Leu327, and Arg209 in HSA had the highest interaction energies with the ligand. In this study, the interaction of clomiphene with human serum albumin (HSA), the most abundant plasma transport protein, was investigated using spectrofluorometric, FT-IR, UV-Vis, and molecular modeling methods.![]()
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Affiliation(s)
| | - Sajad Moradi
- Nano Drug Delivery Research Center
- Kermanshah University of Medical Sciences
- Kermanshah
- Iran
| | - Amin Nowroozi
- Pharmaceutical Sciences Research Center
- School of Pharmacy
- Kermanshah University of Medical Sciences
- Kermanshah
- Iran
| | - Komail Sadrjavadi
- Pharmaceutical Sciences Research Center
- School of Pharmacy
- Kermanshah University of Medical Sciences
- Kermanshah
- Iran
| | - Negin Farhadian
- Nano Drug Delivery Research Center
- Kermanshah University of Medical Sciences
- Kermanshah
- Iran
| | - Hosna Ehzari
- Nano Drug Delivery Research Center
- Kermanshah University of Medical Sciences
- Kermanshah
- Iran
| | - Mohsen Shahlaei
- Department of Medicinal Chemistry
- Medical Biology Research Center
- Faculty of Pharmacy
- Kermanshah University of Medical Sciences
- Kermanshah
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He J, Ma X, Wang Q, Huang Y, Li H. Probing the Interaction between Acotiamide Hydrochloride and Pepsin by Multispectral Methods, Electrochemical Measurements, and Docking Studies. J Biochem Mol Toxicol 2016; 30:350-9. [DOI: 10.1002/jbt.21800] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2016] [Accepted: 02/25/2016] [Indexed: 11/11/2022]
Affiliation(s)
- Jiawei He
- College of Chemical Engineering; Sichuan University; Chengdu People's Republic of China
| | - Xianglin Ma
- College of Chemical Engineering; Sichuan University; Chengdu People's Republic of China
| | - Qing Wang
- College of Chemical Engineering; Sichuan University; Chengdu People's Republic of China
| | - Yanmei Huang
- College of Chemical Engineering; Sichuan University; Chengdu People's Republic of China
| | - Hui Li
- College of Chemical Engineering; Sichuan University; Chengdu People's Republic of China
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Fu Z, Cui Y, Cui F, Zhang G. Modeling techniques and fluorescence imaging investigation of the interactions of an anthraquinone derivative with HSA and ctDNA. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2016; 153:572-579. [PMID: 26436845 DOI: 10.1016/j.saa.2015.09.011] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/06/2015] [Revised: 08/31/2015] [Accepted: 09/20/2015] [Indexed: 06/05/2023]
Abstract
A new anthraquinone derivative (AORha) was synthesized. Its interactions with human serum albumin (HSA) and calf thymus DNA (ctDNA) were investigated by fluorescence spectroscopy, UV-visible absorption spectroscopy and molecular modeling. Cell viability assay and cell imaging experiment were performed using cervical cancer cells (HepG2 cells). The fluorescence results revealed that the quenching mechanism was static quenching. At different temperatures (290, 300, 310 K), the binding constants (K) and the number of binding sites (n) were determined, respectively. The positive ΔH and ΔS values showed that the binding of AORha with HSA was hydrophobic force, which was identical with the molecular docking result. Studying the fluorescence spectra, UV spectra and molecular modeling also verified that the binding mode of AORha and ctDNA might be intercalative. When HepG2 cells were treated with AORha, the fluorescence became brighter and turned green, which could be used for bioimaging.
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Affiliation(s)
- Zheng Fu
- College of Chemistry and Chemical Engineering, Key Laboratory of Green Chemical Media and Reactions, Ministry of Education, Henan Normal University, Xinxiang 453007, China; Department of Electrical Engineering, Henan Mechanical and Electrical Engineering College, Xinxiang 453000, China
| | - Yanrui Cui
- College of Chemistry and Chemical Engineering, Key Laboratory of Green Chemical Media and Reactions, Ministry of Education, Henan Normal University, Xinxiang 453007, China
| | - Fengling Cui
- College of Chemistry and Chemical Engineering, Key Laboratory of Green Chemical Media and Reactions, Ministry of Education, Henan Normal University, Xinxiang 453007, China.
| | - Guisheng Zhang
- College of Chemistry and Chemical Engineering, Key Laboratory of Green Chemical Media and Reactions, Ministry of Education, Henan Normal University, Xinxiang 453007, China
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Kumari R, Singh S, Monisha M, Bhowmick S, Roy A, Das N, Das P. Hierarchical coassembly of DNA-triptycene hybrid molecular building blocks and zinc protoporphyrin IX. BEILSTEIN JOURNAL OF NANOTECHNOLOGY 2016; 7:697-707. [PMID: 27335759 PMCID: PMC4901925 DOI: 10.3762/bjnano.7.62] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/13/2016] [Accepted: 04/29/2016] [Indexed: 05/06/2023]
Abstract
Herein, we describe the successful construction of composite DNA nanostructures by the self-assembly of complementary symmetrical 2,6,14-triptycenetripropiolic acid (TPA)-DNA building blocks and zinc protoporphyrin IX (Zn PpIX). DNA-organic molecule scaffolds for the composite DNA nanostructure were constructed through covalent conjugation of TPA with 5'-C12-amine-terminated modified single strand DNA (ssDNA) and its complementary strand. The repeated covalent conjugation of TPA with DNA was confirmed by using denaturing polyacrylamide gel electrophoresis (PAGE), reverse-phase high-performance liquid chromatography (RP-HPLC) and matrix-assisted laser desorption/ionization time-of-flight (MALDI-TOF). The biologically relevant photosensitizer Zn PpIX was used to direct the hybridization-mediated self-assembly of DNA-TPA molecular building blocks as well as a model guest molecule within the DNA-TPA supramolecular self-assembly. The formation of fiber-like composite DNA nanostructures was observed. Native PAGE, circular dichroism (CD) and atomic force microscopy (AFM) have been utilized for analyzing the formation of DNA nanofibers after the coassembly. Computational methods were applied to discern the theoretical dimension of the DNA-TPA molecular building block of the nanofibers. A notable change in photocatalytic efficiency of Zn PpIX was observed when it was inside the TPA-DNA scaffold. The significant increase in ROS generation by Zn PpIX when trapped in this biocompatible DNA-TPA hybrid nanofiber may be an effective tool to explore photodynamic therapy (PDT) applications as well as photocatalytic reactions.
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Affiliation(s)
- Rina Kumari
- Department of Chemistry, IIT Patna, Bihata 801118, India
| | - Sumit Singh
- Department of Chemistry, IIT Patna, Bihata 801118, India
| | - Mohan Monisha
- Department of Biotechnology, IIT Hyderabad, Hyderabad, 502205, India
| | | | - Anindya Roy
- Department of Biotechnology, IIT Hyderabad, Hyderabad, 502205, India
| | - Neeladri Das
- Department of Chemistry, IIT Patna, Bihata 801118, India
| | - Prolay Das
- Department of Chemistry, IIT Patna, Bihata 801118, India
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He J, Yang H, Li S, Xu K, Wang Q, Huang Y, Li H. Characterization of the interaction between acotiamide hydrochloride and human serum albumin: 1H STD NMR spectroscopy, electrochemical measurement, and docking investigations. RSC Adv 2016. [DOI: 10.1039/c6ra08310b] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
The comprehensive investigation of acotiamide hydrochloride and HSA interaction provides a convictive explanation for its binding mechanism.
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Affiliation(s)
- Jiawei He
- College of Chemical Engineering
- Sichuan University
- Chengdu
- China
| | - Hongqin Yang
- College of Chemical Engineering
- Sichuan University
- Chengdu
- China
| | - Shanshan Li
- College of Chemical Engineering
- Sichuan University
- Chengdu
- China
| | - Kailin Xu
- College of Chemical Engineering
- Sichuan University
- Chengdu
- China
| | - Qing Wang
- College of Chemical Engineering
- Sichuan University
- Chengdu
- China
| | - Yanmei Huang
- College of Chemical Engineering
- Sichuan University
- Chengdu
- China
| | - Hui Li
- College of Chemical Engineering
- Sichuan University
- Chengdu
- China
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10
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Binding of angiogenesis inhibitor kringle 5 to its specific ligands by frontal affinity chromatography. J Chromatogr A 2015; 1401:42-51. [DOI: 10.1016/j.chroma.2015.04.058] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/20/2014] [Revised: 04/25/2015] [Accepted: 04/28/2015] [Indexed: 11/21/2022]
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11
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Tu B, Wang Y, Mi R, Ouyang Y, Hu YJ. Evaluation of the interaction between naringenin and human serum albumin: Insights from fluorescence spectroscopy, electrochemical measurement and molecular docking. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2015; 149:536-543. [PMID: 25978022 DOI: 10.1016/j.saa.2015.04.087] [Citation(s) in RCA: 46] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/06/2015] [Revised: 03/18/2015] [Accepted: 04/21/2015] [Indexed: 06/04/2023]
Abstract
Naringenin (Nar) is a flavanone compound found in grapefruits that is endowed with diverse pharmacological and biological activities. Here, the interaction between Nar and human serum albumin (HSA) was investigated via various methods, including fluorescence spectroscopy, electrochemical methods and molecular docking. The Stern-Volmer quenching constants inversely correlated with temperature, demonstrating that the fluorescence quenching about HSA-Nar system is initiated by the formation of a compound, which has confirmed by electrochemical measurements. Three-dimensional fluorescence demonstrated that Nar induces the slight unfolding of the polypeptides of HSA. The calculated thermodynamic parameters suggesting that the binding of Nar to HSA is spontaneous, and the mainly force is electrostatic interactions. In addition, site marker competitive experiments indicated that Nar binds to HSA both on site I (subdomain IIA) and site II (subdomain IIIA), with higher affinity to the latter one, consistence with molecular docking. Furthermore, the fluorescence resonance energy transfer (FRET) experiment showed the binding distance (r) is 2.65 nm. And the effects of metal ions on the HSA-Nar system are also discussed.
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Affiliation(s)
- Bao Tu
- Hubei Collaborative Innovation Center for Rare Metal Chemistry, Hubei Key Laboratory of Pollutant Analysis & Reuse Technology, Department of Chemistry, Hubei Normal University, Huangshi 435002, PR China
| | - Yang Wang
- Hubei Collaborative Innovation Center for Rare Metal Chemistry, Hubei Key Laboratory of Pollutant Analysis & Reuse Technology, Department of Chemistry, Hubei Normal University, Huangshi 435002, PR China
| | - Ran Mi
- Hubei Collaborative Innovation Center for Rare Metal Chemistry, Hubei Key Laboratory of Pollutant Analysis & Reuse Technology, Department of Chemistry, Hubei Normal University, Huangshi 435002, PR China
| | - Yu Ouyang
- Hubei Collaborative Innovation Center for Rare Metal Chemistry, Hubei Key Laboratory of Pollutant Analysis & Reuse Technology, Department of Chemistry, Hubei Normal University, Huangshi 435002, PR China.
| | - Yan-Jun Hu
- Hubei Collaborative Innovation Center for Rare Metal Chemistry, Hubei Key Laboratory of Pollutant Analysis & Reuse Technology, Department of Chemistry, Hubei Normal University, Huangshi 435002, PR China.
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Li ZJ, Hou Y, Qin DA, Jin ZM, Hu ML. Two half-sandwiched ruthenium (II) compounds containing 5-fluorouracil derivatives: synthesis and study of DNA intercalation. PLoS One 2015; 10:e0120211. [PMID: 25789618 PMCID: PMC4366203 DOI: 10.1371/journal.pone.0120211] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2014] [Accepted: 01/20/2015] [Indexed: 11/18/2022] Open
Abstract
Two novel coordination compounds of half-sandwiched ruthenium(II) containing 2-(5-fluorouracil)-yl-N-(pyridyl)-acetamide were synthesized, and their intercalation binding modes with calf thymus DNA were revealed by hyperchromism of ultraviolet-visible spectroscopy; the binding constants were determined according to a Langmuir adsorption equation that was deduced on the base of careful cyclic voltammetry measurements. The two compounds exhibited DNA intercalation binding activities with the binding constants of 1.13×106 M-1 and 5.35 ×105 M-1, respectively.
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Affiliation(s)
- Zhao-Jun Li
- Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture, Beijing, China
| | - Yong Hou
- Institute of Biotechnology and Nucleic Technology, Sichuan Academy of Agricultural Sciences, Chengdu, China
| | - Da-An Qin
- College of Chemistry and Materials Engineering, Wenzhou University, Wenzhou, China
| | - Zhi-Min Jin
- College of Pharmaceutical Sciences, Zhejiang University of Technology, Hangzhou, China
- * E-mail: (ZMJ); (MLH)
| | - Mao-Lin Hu
- College of Chemistry and Materials Engineering, Wenzhou University, Wenzhou, China
- * E-mail: (ZMJ); (MLH)
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13
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Wu D, Chen Z. Study on the interaction between ginsenoside Rh2 and calf thymus DNA by spectroscopic techniques. LUMINESCENCE 2015; 30:1212-8. [DOI: 10.1002/bio.2883] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2014] [Revised: 01/18/2015] [Accepted: 01/19/2015] [Indexed: 12/11/2022]
Affiliation(s)
- Dudu Wu
- School of Pharmacy, Guangdong Medical College; Dongguan 523808 People's Republic of China
| | - Zhi Chen
- School of Pharmacy, Guangdong Medical College; Dongguan 523808 People's Republic of China
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