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Chen Y, Liang W, Huang M, Li C, Song Z, Zheng Y, Yi Z. Exploring the mechanism of interaction between TBG and halogenated thiophenols: Insights from fluorescence analysis and molecular simulation. Int J Biol Macromol 2024; 261:129645. [PMID: 38296143 DOI: 10.1016/j.ijbiomac.2024.129645] [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: 08/29/2023] [Revised: 01/07/2024] [Accepted: 01/18/2024] [Indexed: 02/03/2024]
Abstract
Thyroxine-binding globulin (TBG) plays a vital role in regulating metabolism, growth, organ differentiation, and energy homeostasis, exerting significant effects in various key metabolic pathways. Halogenated thiophenols (HTPs) exhibit high toxicity and harmfulness to organisms, and numerous studies have demonstrated their thyroid-disrupting effects. To understand the mechanism of action of HTPs on TBG, a combination of competitive binding experiments, multiple fluorescence spectroscopy techniques, molecular docking, and molecular simulations was employed to investigate the binding mechanism and identify the binding site. The competition binding assay between HTPs and ANS confirmed the competition of HTPs with thyroid hormone T4 for the active site of TBG, resulting in changes in the TBG microenvironment upon the binding of HTPs to the active site. Key amino acid residues involved in the binding process of HTPs and TBG were further investigated through residue energy decomposition. The distribution of high-energy contributing residues was determined. Analysis of root-mean-square deviation (RMSD) demonstrated the stability of the HTPs-TBG complex. These findings confirm the toxic mechanism of HTPs in thyroid disruption, providing a fundamental reference for accurately assessing the ecological risk of pollutants and human health. Providing mechanistic insights into how HTPS causes thyroid diseases.
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Affiliation(s)
- Yanting Chen
- College of Chemistry and Bioengineering, Guilin University of Technology, Guilin 541004, China
| | - Wenhui Liang
- College of Chemistry and Bioengineering, Guilin University of Technology, Guilin 541004, China
| | - Muwei Huang
- College of Chemistry and Bioengineering, Guilin University of Technology, Guilin 541004, China
| | - Cancan Li
- College of Chemistry and Bioengineering, Guilin University of Technology, Guilin 541004, China
| | - Zeyu Song
- College of Chemistry and Bioengineering, Guilin University of Technology, Guilin 541004, China
| | - Yanhong Zheng
- College of Chemistry and Bioengineering, Guilin University of Technology, Guilin 541004, China
| | - Zhongsheng Yi
- College of Chemistry and Bioengineering, Guilin University of Technology, Guilin 541004, China.
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2
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Abubakar M, Mohamad SB, Abd Halim AA, Tayyab S. Unveiling the molecular interaction of hepatitis B virus inhibitor, entecavir with human serum albumin through computational, microscopic and spectroscopic approaches. J Biomol Struct Dyn 2024:1-14. [PMID: 38315445 DOI: 10.1080/07391102.2024.2311331] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2023] [Accepted: 01/23/2024] [Indexed: 02/07/2024]
Abstract
Molecular docking, molecular dynamics (MD) simulation, atomic force microscopy (AFM) and multi-spectroscopic techniques were selected to unveil the molecular association between the hepatitis B virus (HBV) inhibitor, entecavir (ETR), and the major blood plasma transporter, human serum albumin (HSA). The entire docking and simulation analyses recognized ETR binding to subdomain IIA (Site I) of HSA through hydrogen bonds, hydrophobic and van der Waals forces while maintaining the complex's stability throughout the 100 ns. A gradual lessening in the Stern-Volmer quenching constant (K sv ) with rising temperatures registered ETR-induced quenching of HBV fluorescence as static quenching, thus advising complexation between ETR and HSA. The further advocation of this conclusion was seen from a larger value of the biomolecular quenching rate constant ((kq ) > 1010 M-1s-1), changes in the spectra (UV-Vis absorption) of HSA following ETR inclusion and ETR-induced swelling of HSA in the AFM results. The ETR appeared to bind to HSA with moderate affinity (K a = 1.87 - 1.19 × 10 4 M-1) at 290, 300 and 310 K. Significant alterations in the protein's secondary and tertiary structures, including changes in the protein's Tyr/Trp microenvironment, were also detected by circular dichroism and three-dimensional fluorescence spectra when the protein was bound to ETR. The findings of the drug displacement study backed the docking results of Site I as ETR's preferred binding site in HSA.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Mujaheed Abubakar
- Institute of Biological Sciences, Faculty of Science, Universiti Malaya, Kuala Lumpur, Malaysia
| | - Saharuddin B Mohamad
- Institute of Biological Sciences, Faculty of Science, Universiti Malaya, Kuala Lumpur, Malaysia
| | - Adyani Azizah Abd Halim
- Department of Oral and Craniofacial Sciences, Faculty of Dentistry, Universiti Malaya, Kuala Lumpur, Malaysia
| | - Saad Tayyab
- Department of Pharmaceutical Chemistry, Faculty of Pharmaceutical Sciences, UCSI University, Kuala Lumpur, Malaysia
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3
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Qashqoosh MTA, Alahdal FAM, Manea YK, Zubair S, Khan RH, Khan AM, Naqvi S. Binding ability of roxatidine acetate and roxatidine acetate supported chitosan nanoparticles towards bovine serum albumin: characterization, spectroscopic and molecular docking studies. J Biomol Struct Dyn 2023; 41:106-124. [PMID: 34821213 DOI: 10.1080/07391102.2021.2004234] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Abstract
The RxAc drug loaded on Tween80-chitosan-TPP nanoparticles (NRxAc) has been characterized and probed by UV-Vis, PXRD, FTIR, DLS and SEM technique. The physicochemical characteristics of NRxAc have been employed and evaluated for formulation of drug, particle size, external morphology, drug content and in vitro drug release. Multi-spectroscopic (i.e. fluorescence, UV-Vis, CD spectroscopy) and molecular docking techniques were also used to study the interaction of BSA with RxAc and NRxAc. RxAc and NRxAc quenched the fluorescence emission of BSA via a static quenching mechanism. The experimental data of Fluorescence demonstrated that the binding constant of RxAc and NRxAc were found around 104 L.mol-1, which suggests moderate binding affinity with BSA via hydrophobic forces. Through the site marker displacement experiments and molecular docking, the probable binding location of RxAc and NRxAc has been suggested in subdomain IB (site III) of BSA. Altogether, the results of present study can provide an important insight and a great deal of helpful information for future design of antiulcer drugs. Hence, The RxAc-loaded chitosan nanoparticles produced might be utilized as a successful tool for developing and using antiulcer drugs.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Mohsen T A Qashqoosh
- Department of Chemistry, Aligarh Muslim University, Aligarh, Uttar Pradesh, India.,Department of Chemistry, University of Aden, Aden, Yemen
| | - Faiza A M Alahdal
- Department of Chemistry, Aligarh Muslim University, Aligarh, Uttar Pradesh, India.,Department of Chemistry, Hodeidah University, Al Hudaydah, Yemen
| | - Yahiya Kadaf Manea
- Department of Chemistry, Aligarh Muslim University, Aligarh, Uttar Pradesh, India.,Department of Chemistry, University of Aden, Aden, Yemen
| | - Swaleha Zubair
- Department of Computer science, Aligarh Muslim University, Aligarh, Uttar Pradesh, India
| | - Rizwan Hasan Khan
- Interdisciplinary Biotechnology Unit, Aligarh Muslim University, Aligarh, Uttar Pradesh, India
| | - Amjad Mumtaz Khan
- Department of Chemistry, Aligarh Muslim University, Aligarh, Uttar Pradesh, India
| | - Saeeda Naqvi
- Department of Chemistry, Aligarh Muslim University, Aligarh, Uttar Pradesh, India
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Abubakar M, Kandandapani S, Mohamed SB, Azizah Abd Halim A, Tayyab S. Shedding light on the Molecular Interaction Between the Hepatitis B Virus Inhibitor, Clevudine, and Human Serum Albumin: Thermodynamic, Spectroscopic, Microscopic, and In Silico Analyses. J Mol Liq 2022. [DOI: 10.1016/j.molliq.2022.120737] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
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5
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Deciphering the mechanism of interaction of an ester-functionalized cationic gemini surfactant with bovine serum albumin: A biophysical and molecular modeling study. Colloids Surf A Physicochem Eng Asp 2022. [DOI: 10.1016/j.colsurfa.2022.128944] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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6
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Kaushal D, Lal H, Ansari SS, Naqvi S. Effect of local anesthetic drug procaine hydrochloride on the conformational stability of bovine hemoglobin: Multi-spectroscopic and computational approaches. J Biomol Struct Dyn 2021; 40:8938-8948. [PMID: 33970817 DOI: 10.1080/07391102.2021.1920465] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
The interaction between bovine hemoglobin (BHb) and local anesthetic drug procaine hydrochloride (PCH) was examined by spectroscopic and computational studies. Intrinsic fluorescence analysis explored the ground-state complex formation in the binding of PCH with BHb through static quenching mechanism. The binding constants (Kb) are 29.38 × 103, 22.54 × 103 and 17.99 × 103 M-1 at 288, 298 and 308 K, respectively, and the ratio of BHb:PCH was 1:1 in the interaction mechanism of PCH and BHb. The acquired thermodynamic parameters (ΔH0, ΔG0 and ΔS0) demonstrated that interaction mechanism is spontaneous and enthalpy driven. The van der Waals forces and hydrogen bonding have been played a predominant role in the binding mechanism. The UV-vis spectroscopy validates the ground-state complexation between PCH and BHb and the binding constant (Kb) has been evaluated utilizing Benesi-Hildebrand equation. Fluorescence resonance energy transfer (FRET) results have demonstrated that the distance between donor (BHb) and acceptor (PCH) is very short (2.34 nm) suggesting a significant probability to energy transfer from BHb to PCH. Synchronous fluorescence results revealed that the alteration in the micro-environment of Tyrosine (Tyr) is more than tryptophan (Trp) residues suggesting that PCH molecule is close to Tyr residue. The secondary structure alterations were confirmed by CD, 3-D fluorescence and FT-IR spectroscopic measurements. Moreover, computational analyses further corroborated that PCH molecules are closer to Tyr residues as compared to Trp residues of BHb during the interaction process. The BHb-PCH complexes may contribute to a deeper understanding of the metabolism of drug, blood circulation process and may help to illustrate the relationship between functions and structure of BHb.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Deepak Kaushal
- Department of Chemistry, Aligarh Muslim University, Aligarh, Uttar Pradesh, India
| | - Hira Lal
- Department of Chemistry, Aligarh Muslim University, Aligarh, Uttar Pradesh, India
| | | | - Saeeda Naqvi
- Department of Chemistry, Aligarh Muslim University, Aligarh, Uttar Pradesh, India
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7
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Verebová V, Beneš J, Staničová J. Biophysical Characterization and Anticancer Activities of Photosensitive Phytoanthraquinones Represented by Hypericin and Its Model Compounds. Molecules 2020; 25:E5666. [PMID: 33271809 PMCID: PMC7731333 DOI: 10.3390/molecules25235666] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2020] [Revised: 11/27/2020] [Accepted: 11/28/2020] [Indexed: 12/17/2022] Open
Abstract
Photosensitive compounds found in herbs have been reported in recent years as having a variety of interesting medicinal and biological activities. In this review, we focus on photosensitizers such as hypericin and its model compounds emodin, quinizarin, and danthron, which have antiviral, antifungal, antineoplastic, and antitumor effects. They can be utilized as potential agents in photodynamic therapy, especially in photodynamic therapy (PDT) for cancer. We aimed to give a comprehensive summary of the physical and chemical properties of these interesting molecules, emphasizing their mechanism of action in relation to their different interactions with biomacromolecules, specifically with DNA.
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Affiliation(s)
- Valéria Verebová
- Department of Chemistry, Biochemistry and Biophysics, University of Veterinary Medicine & Pharmacy, Komenského 73, 041 81 Košice, Slovakia;
| | - Jiří Beneš
- Institute of Biophysics and Informatics, First Faculty of Medicine, Charles University, Kateřinská 1, 121 08 Prague, Czech Republic;
| | - Jana Staničová
- Department of Chemistry, Biochemistry and Biophysics, University of Veterinary Medicine & Pharmacy, Komenského 73, 041 81 Košice, Slovakia;
- Institute of Biophysics and Informatics, First Faculty of Medicine, Charles University, Kateřinská 1, 121 08 Prague, Czech Republic;
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8
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Li X, Sun X, Zhao R, Shao D, Bi S. Study on the binding of sulfaclozine sodium monohydrate with bovine and human serum albumins using multi-spectroscopy and molecular docking. J Biomol Struct Dyn 2020; 39:4835-4844. [PMID: 32579083 DOI: 10.1080/07391102.2020.1780945] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
Abstract
The interactions of sulfaclozine sodium monohydrate (SSM) with bovine and human serum albumins (BSA and HSA) were studied by multi-spectroscopy and molecular docking technique. Stern-Volmer analysis and fluorescence lifetime measurements suggested the quenching processes were static. According to the Fluorescence resonance energy transfer (FRET) theory, the binding distances were obtained indicating SSM interacted with BSA/HSA along with non-radiation energy conversion. Electrostatic attraction was the main force in keeping the stability of the compound based on thermodynamic parameters. Circular dichroism (CD), synchronous fluorescence and Fourier Transform infrared (FT-IR) spectra embodied the secondary structures of serum albumins were transformed by SSM. The site marker competitive and molecular docking measurements testified SSM bound to BSA/HSA at site I. In conclusion, the secondary structures of BSA/HSA were changed by SSM in the static fluorescence quenching processes with the non-radiation energy conversion. The binding sites were all located at site I and electrostatic attraction was the main force for the new compound. Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Xu Li
- College of Chemistry, Changchun Normal University, Changchun, China
| | - Xiaoyue Sun
- College of Chemistry, Changchun Normal University, Changchun, China
| | - Rui Zhao
- College of Chemistry, Changchun Normal University, Changchun, China
| | - Di Shao
- College of Chemistry, Changchun Normal University, Changchun, China
| | - Shuyun Bi
- College of Chemistry, Changchun Normal University, Changchun, China
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9
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Wang X, Xing Y, Su J, Wang C, Wang Z, Yu Y, Xu H, Ma D. Synthesis of two new naphthalene-containing compounds and their bindings to human serum albumin. J Biomol Struct Dyn 2020; 39:3435-3448. [DOI: 10.1080/07391102.2020.1764867] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
Affiliation(s)
- Xia Wang
- School of Chemistry and Materials Science, Heilongjiang University, Harbin, China
| | - Yue Xing
- School of Agricultural Resources and Environment, Heilongjiang University, Harbin, China
| | - Jing Su
- School of Agricultural Resources and Environment, Heilongjiang University, Harbin, China
| | - Changsheng Wang
- School of Chemistry and Materials Science, Heilongjiang University, Harbin, China
| | - Zishi Wang
- School of Agricultural Resources and Environment, Heilongjiang University, Harbin, China
| | - Yinghui Yu
- School of Chemistry and Materials Science, Heilongjiang University, Harbin, China
| | - Hongliang Xu
- School of Agricultural Resources and Environment, Heilongjiang University, Harbin, China
| | - DongSheng Ma
- School of Chemistry and Materials Science, Heilongjiang University, Harbin, China
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10
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Musa KA, Ridzwan NFW, Mohamad SB, Tayyab S. Exploring the combination characteristics of lumefantrine, an antimalarial drug and human serum albumin through spectroscopic and molecular docking studies. J Biomol Struct Dyn 2020; 39:691-702. [PMID: 31913089 DOI: 10.1080/07391102.2020.1713215] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Abstract
Binding of lumefantrine (LUM), an antimalarial drug to human serum albumin (HSA), the main carrier protein in human blood circulation was investigated using fluorescence quenching titration, UV-vis absorption and circular dichroism (CD) spectroscopy as well as molecular docking. LUM-induced quenching of the protein (HSA) fluorescence was characterized as static quenching, as revealed by the decrease in the value of the Stern-Volmer quenching constant, Ksv with increasing temperature, thus suggesting LUM-HSA complex formation. This was also confirmed from the UV-vis absorption spectral results. Values of the association constant, Ka for LUM-HSA interaction were found to be within the range, 7.27-5.01 × 104 M-1 at three different temperatures, i.e. 288 K, 298 K and 308 K, which indicated moderate binding affinity between LUM and HSA. The LUM-HSA complex was stabilized by hydrophobic interactions, H-bonds, as well as van der Waals forces, as predicted from the thermodynamic data (ΔS = +50.34 J mol-1 K-1 and ΔH = -12.3 kJ mol-1) of the binding reaction. Far-UV and near-UV CD spectral results demonstrated smaller changes in both secondary and tertiary structures of HSA upon LUM binding, while three-dimensional fluorescence spectra suggested alterations in the microenvironment around protein fluorophores (Trp and Tyr). LUM binding to HSA offered stability to the protein against thermal stress. Competitive drug displacement results designated Sudlow's Site I, located in subdomain IIA of HSA as the preferred binding site of LUM on HSA, which was well supported by molecular docking analysis.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Kabiru Abubakar Musa
- Biomolecular Research Group, Biochemistry Programme, Institute of Biological Sciences, Faculty of Science, University of Malaya, Kuala Lumpur, Malaysia
| | - Nor Farrah Wahidah Ridzwan
- Bioinformatics Programme, Institute of Biological Sciences, Faculty of Science, University of Malaya, Kuala Lumpur, Malaysia
| | - Saharuddin B Mohamad
- Bioinformatics Programme, Institute of Biological Sciences, Faculty of Science, University of Malaya, Kuala Lumpur, Malaysia.,Centre of Research for Computational Sciences and Informatics for Biology, Bioindustry, Environment, Agriculture and Healthcare, University of Malaya, Kuala Lumpur, Malaysia
| | - Saad Tayyab
- Biomolecular Research Group, Biochemistry Programme, Institute of Biological Sciences, Faculty of Science, University of Malaya, Kuala Lumpur, Malaysia.,Centre of Research for Computational Sciences and Informatics for Biology, Bioindustry, Environment, Agriculture and Healthcare, University of Malaya, Kuala Lumpur, Malaysia
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11
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Śliwińska-Hill U, Wiglusz K. The interaction between human serum albumin and antidiabetic agent - exenatide: determination of the mechanism binding and effect on the protein conformation by fluorescence and circular dichroism techniques - Part I. J Biomol Struct Dyn 2019; 38:2267-2275. [PMID: 31232198 DOI: 10.1080/07391102.2019.1630007] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
The interactions between transport proteins and drugs are very important from the pharmacological point of view. In this study, using fluorescence and circular dichroism (CD) techniques, we investigated the interaction between human serum albumin (HSA) and incretin antidiabetic drug - exenatide. Moreover, the effect of common metal ions (Ca2+, Zn2+, Cr3+) on the exenatide-HSA binding - was also described. Based on the experimental data under pseudophysiological conditions, the calculated binding constant values are on the order of 104 M-1, and the constants are lower in the presence of metal ions. We observed the increase of the hydrophobicity near the tryptophan-214 residue in subdomain IIA, but almost no change in the hydrophobicity surrounding tyrosine residues. A similar effect on the tryptophan microenvironment is influenced by metal ions. The calculated thermodynamic parameters indicated that the characteristic electrostatic and hydrophobic interactions play an important role in the albumin-exenatide complexes. The CD studies showed that exenatide does not change the secondary structure of the protein but used metal ions have some impact on albumin α-helical content.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Urszula Śliwińska-Hill
- Department of Analytical Chemistry, Faculty of Pharmacy, Wrocław Medical University, Wrocław, Poland
| | - Katarzyna Wiglusz
- Department of Analytical Chemistry, Faculty of Pharmacy, Wrocław Medical University, Wrocław, Poland
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12
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Ghosh T, Sarkar S, Bhattacharjee P, Jana GC, Hossain M, Pandya P, Bhadra K. In vitro relationship between serum protein binding to beta-carboline alkaloids: a comparative cytotoxic, spectroscopic and calorimetric assays. J Biomol Struct Dyn 2019; 38:1103-1118. [PMID: 30909826 DOI: 10.1080/07391102.2019.1595727] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Abstract
The work highlighted interaction of harmalol, harmaline and harmine with human serum albumin by biophysical and biochemical assays. Presence of serum protein in the media negatively affects the cytotoxicity of the alkaloids. MTT assay indicates concentration-dependent growth inhibitory effect of the alkaloids on A375, MDA-MB-231, HeLa, A549, ACHN and HepG2 cell, having maximum cytotoxicity with GI50 value of 6.5 μM on ACHN by harmine in 1% of fetal bovine serum. Detail cytotoxic studies on ACHN cell by harmine, the most cytotoxic among the three, reveal nucleosomal fragmentation, formation of comet tail, generation of reactive oxygen species, decreased mitochondrial membrane potential, up regulation of p53, caspase 3 and significant increase in G2/M population that made the cancer cells prone to apoptosis. Furthermore, the findings unequivocally pointed out that harmine binds strongly to the protein with a binding constant of 5.53 × 104 M-1 followed by harmaline and least with harmalol. Thermodynamic results revealed enthalpy dominated, entropy favored, 1:1 binding. Molecular docking and circular dichroism suggested changed conformation of protein by partial unfolding on complexation. Further supported by infrared analysis where protein secondary structure was altered with a major decrease of α-helix from 53.68% (free protein) to 8-11% and change in β-sheet from 25.31% (free protein) to 1-6% upon binding, inducing partial protein destabilization. Site markers demonstrated site I (subdomain IIA) binding of the alkaloids to the protein. The results serve as data for the future development of serum protein-based targeted drugs. AbbreviationsCD: circular dichroism; FBS: fetal bovine serumFRETForster resonance energy transferFTIRFourier transform infraredHSAhuman serum albumin; ROS: reactive oxygen speciesCommunicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Tapas Ghosh
- Department of Zoology, University of Kalyani, Nadia, West Bengal, India
| | - Sarita Sarkar
- Department of Zoology, University of Kalyani, Nadia, West Bengal, India.,Bose Institute, Kolkata, India
| | | | - Gopal Chandra Jana
- Department of Zoology, University of Kalyani, Nadia, West Bengal, India.,Vidyasagar University, Midnapore, West Bengal, India
| | - Maidul Hossain
- Department of Zoology, University of Kalyani, Nadia, West Bengal, India.,Vidyasagar University, Midnapore, West Bengal, India
| | - Prateek Pandya
- Department of Zoology, University of Kalyani, Nadia, West Bengal, India.,Amity Institute of Forensic Sciences, Amity University, Noida, Uttar Pradesh, India
| | - Kakali Bhadra
- Department of Zoology, University of Kalyani, Nadia, West Bengal, India
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13
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Celik S, Ozkok F, Ozel AE, Müge Sahin Y, Akyuz S, Sigirci BD, Kahraman BB, Darici H, Karaoz E. Synthesis, FT-IR and NMR characterization, antimicrobial activity, cytotoxicity and DNA docking analysis of a new anthraquinone derivate compound. J Biomol Struct Dyn 2019; 38:756-770. [PMID: 30890106 DOI: 10.1080/07391102.2019.1587513] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
Abstract
A new anthraquinone [1-(2-Aminoethyl)piperazinyl-9,10-dioxo-anthraquinone] derivative was synthesized and characterized by density functional theory (DFT) calculations, experimental and theoretical vibrational spectroscopy and NMR techniques. The most stable molecular structure of the title molecule was determined by DFT B3LYP method with 6-31++G(d,p) and 6-311++G(d,p) basis sets. The fundamental vibrational wavenumbers, IR and Raman intensities for the optimized structure of the investigated molecule were calculated and compared with the experimental vibrational spectra. The vibrational assignment of the molecule was done using the potential energy distribution analysis. The molecular electrostatic potential (MEP), highest occupied molecular orbital (HOMO) and lowest occupied molecular orbital (LUMO) were also calculated. The antibacterial activities of the new anthraquinone derivative against Gram-positive and Gram-negative bacteria were determined, and it was shown that the highest effectiveness was against Staphylococcus aureus and S. epidermidis while no activity was against Gram-negative bacteria. Moreover, the antimycotic activity of the title compound was examined and the cytotoxicity of anthraquinone derivate was determined. In order to find the possible inhibitory activity of the title compound, molecular docking of the molecule was carried out against DNA. The results indicated that the mentioned compound has a good binding affinity to interact with the DC3, DG4, DA5, DC21 and DC23 residues of DNA via the intermolecular hydrogen bonds. [Formula: see text] Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Sefa Celik
- Engineering Faculty, Electrical-Electronics Engineering Department, Istanbul University-Cerrahpasa, Avcilar, Istanbul, Turkey
| | - Funda Ozkok
- Engineering Faculty, Department of Chemistry, Istanbul University-Cerrahpasa, Avcilar, Istanbul, Turkey
| | - Aysen E Ozel
- Faculty of Science, Department of Physics, Istanbul University, Vezneciler, Istanbul, Turkey
| | - Yesim Müge Sahin
- Department of Biomedical Engineering, Istanbul Arel University, Istanbul, Turkey
| | - Sevim Akyuz
- Faculty of Science and Letters, Department of Physics, Istanbul Kultur University, Atakoy Campus, Istanbul, Turkey
| | - Belgi Diren Sigirci
- Faculty of Veterinary Medicine, Department of Microbiology, Istanbul University-Cerrahpasa, Avcilar, Istanbul, Turkey
| | - Beren Basaran Kahraman
- Faculty of Veterinary Medicine, Department of Microbiology, Istanbul University-Cerrahpasa, Avcilar, Istanbul, Turkey
| | - Hakan Darici
- Faculty of Medicine, Department of Histology and Embryology, Istinye University, Istanbul, Turkey
| | - Erdal Karaoz
- Faculty of Medicine, Department of Histology and Embryology, Istinye University, Istanbul, Turkey
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14
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Li J, Feng H, Liu R, Ding G, Si H, He W, Sun Z. The computational and experimental studies on a 1, 2, 3-triazole compound and its special binding to three kinds of blood proteins. J Biomol Struct Dyn 2019; 38:1185-1196. [PMID: 30909827 DOI: 10.1080/07391102.2019.1598498] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Abstract
A newly synthesized compound, ethyl 5-phenyl-2-(p-tolyl)-2H-1, 2, 3-triazole-4-carboxylate (EPPC) may be considered as a drug candidate and was exploited to study the structural and spectral properties by using quantum chemical calculation and multiple spectroscopic techniques. The results on theoretical spectrum of EPPC were consistent with experimental spectrum in great degree. In addition, EPPC has been as a special probe and investigated on the interactions with three kinds of blood proteins including human serum albumin (HSA), human immunoglobulin (HIgG) and bovine hemoglobin (BHb) by using UV-Vis, fluorescence spectroscopy and molecular modeling, respectively. Changes in various fluorescence and UV-Vis spectra were observed upon ligand binding along with a remarkable degree of fluorescence enhancement on complex formation under physiological condition with binding constant about 105 order of magnitudes, which caused the variations of conformation and microenvironment of these proteins in aqueous solution. The obtained results from the thermodynamic parameters calculated according to the van't Hoff equation indicated that the entropy change ΔS° and enthalpy change ΔH° were found to be 0.168 KJ/mol K and 22.154 KJ/mol for EPPC-HSA system, 0.284 KJ/mol K and 54.408 KJ/mol for EPPC-HIgG system, and 0.228 KJ/mol K and 37.548 KJ/mol for EPPC-BHb system, respectively, which demonstrated that the primary binding pattern is determined by hydrophobic interaction. The results of docking and molecular dynamics simulation using three proteins crystal models revealed that EPPC could bind to three proteins well into hydrophobic cavity, which showed good consistence with the spectroscopic measurements.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Jianling Li
- College of Chemical and Chemical Engineering, Hainan Normal University, Haikou, China
| | - Huajie Feng
- College of Chemical and Chemical Engineering, Hainan Normal University, Haikou, China
| | - Rongqiang Liu
- College of Chemical and Chemical Engineering, Hainan Normal University, Haikou, China
| | - Guohua Ding
- College of Chemical and Chemical Engineering, Hainan Normal University, Haikou, China
| | - Hongzong Si
- Institute for Computational Science and Engineering, Qingdao University, Qingdao, China
| | - Wenying He
- Key Laboratory of Tropical Medicinal Resource Chemistry of Ministry of Education, Hainan Normal University, Haikou, China
| | - Zhenfan Sun
- College of Chemical and Chemical Engineering, Hainan Normal University, Haikou, China
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Yasmeen S, Riyazuddeen, Khatun S, Abul Qais F. Characterization of interactions between cromolyn sodium and bovine serum albumin by spectroscopic, calorimetric and computational methods. J Biomol Struct Dyn 2019; 38:722-732. [DOI: 10.1080/07391102.2019.1586588] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
Affiliation(s)
- Shama Yasmeen
- Department of Chemistry, Aligarh Muslim University, Aligarh, India
| | - Riyazuddeen
- Department of Chemistry, Aligarh Muslim University, Aligarh, India
| | - Samima Khatun
- Department of Chemistry, Aligarh Muslim University, Aligarh, India
| | - Faizan Abul Qais
- Department of Agricultural Microbiology, Aligarh Muslim University, Aligarh, India
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16
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Sun X, Bi S, Wu J, Zhao R, Shao D, Song Z. Multispectral and molecular docking investigations on the interaction of primethamine/trimethoprim with BSA/HSA. J Biomol Struct Dyn 2019; 38:934-942. [PMID: 30843766 DOI: 10.1080/07391102.2019.1588785] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
Primethamine (PMA) and trimethoprim (TMP) were investigated as traditional coccidiostats on the binding of bovine serum albumin (BSA) and human serum albumin (HSA) by multispectral and molecular docking techniques. The Stern-Volmer plots and time-resolved fluorescence measurement declared that PMA/TMP quenching the intrinsic fluorescence of BSA/HSA was static quenching process. The binding constants (Ka) and binding sites (n) were calculated at different temperatures. Meanwhile, thermodynamic parameters showed electrostatic forces played a leading role in the interaction of PMA/TMP with BSA/HSA. Some metal ions such as K+, Mg2+, Cu2+, Ca2+, Zn2+ and Fe3+ had no effects on the binding system. The UV-vis absorption spectra confirmed that the interaction between PMA/TMP and BSA/HSA did happen. The analyses of synchronous fluorescence, FT-IR and circular dichroism spectra illustrated that PMA/TMP changed the secondary structures of BSA/HSA. According to Förster non-radiative energy transfer theory, the binding distance between PMA/TMP and BSA/HSA was calculated. The binding location of PMA/TMP to BSA/HSA was identified as sub-domain IIA, which was further confirmed by molecular docking.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Xiaoyue Sun
- College of Chemistry, Changchun Normal University, Changchun, China
| | - Shuyun Bi
- College of Chemistry, Changchun Normal University, Changchun, China
| | - Jun Wu
- College of Chemistry, Changchun Normal University, Changchun, China
| | - Rui Zhao
- College of Chemistry, Changchun Normal University, Changchun, China
| | - Di Shao
- College of Chemistry, Changchun Normal University, Changchun, China
| | - Zhe Song
- College of Chemistry, Changchun Normal University, Changchun, China
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