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Pavundurai Chandra K, Perumal D, Ragunathan P. Pseudouridimycin-A Potent Nucleoside Inhibitor of the RNA Polymerase Beta Prime Subunit of Streptococcus pyogenes. ACS OMEGA 2023; 8:7989-8000. [PMID: 36873015 PMCID: PMC9979225 DOI: 10.1021/acsomega.2c07805] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/07/2022] [Accepted: 02/01/2023] [Indexed: 06/18/2023]
Abstract
Streptococcus pyogenes (group A streptococcus, GAS), a Gram-positive bacterium, is a major cause of mild to severe life-threatening infections. Antibacterial resistance to penicillin and macrolides poses a major threat in the treatment of GAS and necessitates alternate drugs and newer antibiotics. In this direction, nucleotide-analog inhibitors (NIAs) have emerged as important antiviral, antibacterial, and antifungal agents. Pseudouridimycin (PUM), a nucleoside analogue inhibitor discovered from the soil bacterium Streptomyces sp., has proven to be effective against multidrug-resistant S. pyogenes. However, the mechanism of its activity remains elusive. In this study, subunits of the RNA polymerase of GAS have been identified as targets for PUM inhibition and the binding regions have been mapped to the N-terminal domain of the β' subunit, using computational methods. The antibacterial activity of PUM against macrolide-resistant GAS was evaluated. PUM showed effective inhibition at 0.1-1 μg/mL concentration, which was higher when compared to earlier reports. The molecular interaction between PUM and the RNA polymerase β'-N terminal subunit was investigated using isothermal titration calorimetry (ITC), circular dichorism (CD), and intrinsic fluorescence spectroscopy. The thermodynamic characterization by ITC showed an affinity constant of 6.175 × 105 M-1 denoting a moderate affinity. Fluorescence studies revealed that the interaction of protein-PUM was spontaneous in nature and follows a static quenching of tyrosine signals from the protein. The near- and far-UV CD spectral analysis concluded that PUM induced local tertiary structural changes in the protein, predominantly contributed by aromatic amino acids rather than notable changes in the secondary structure. Hence PUM could be a promising lead drug target for macrolide-resistant strains of S. pyogenes and enable eradication of pathogen in the host system.
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Affiliation(s)
- Kunthavai Pavundurai Chandra
- Centre
of Advanced Study in Crystallography and Biophysics, University of Madras, Guindy Campus, Chennai 600 025, India
| | - Damodharan Perumal
- Department
of Microbiology, Dr ALM PGIBMS, University
of Madras, Taramani Campus, Chennai 600 113, India
| | - Preethi Ragunathan
- Centre
of Advanced Study in Crystallography and Biophysics, University of Madras, Guindy Campus, Chennai 600 025, India
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Szymaszek P, Fiedor P, Chachaj-Brekiesz A, Tyszka-Czochara M, Świergosz T, Ortyl J. Molecular interactions of bovine serum albumin (BSA) with pyridine derivatives as candidates for non-covalent protein probes: a spectroscopic investigation. J Mol Liq 2022. [DOI: 10.1016/j.molliq.2021.118262] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
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Agrawal R, Siddiqi MK, Thakur Y, Tripathi M, Asatkar AK, Khan RH, Pande R. Explication of bovine serum albumin binding with naphthyl hydroxamic acids using a multispectroscopic and molecular docking approach along with its antioxidant activity. LUMINESCENCE 2019; 34:628-643. [PMID: 31190435 DOI: 10.1002/bio.3645] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2018] [Revised: 04/16/2019] [Accepted: 04/18/2019] [Indexed: 12/16/2022]
Abstract
In the present investigation, the protein-binding properties of naphthyl-based hydroxamic acids (HAs), N-1-naphthyllaurohydroxamic acid (1) and N-1-naphthyl-p-methylbenzohydroxamic acid (2) were studied using bovine serum albumin (BSA) and UV-visible spectroscopy, fluorescence spectroscopy, diffuse reflectance spectroscopy-Fourier transform infrared (DRS-FTIR), circular dichroism (CD), and cyclic voltammetry along with computational approaches, i.e. molecular docking. Alteration in the antioxidant activities of compound 1 and compound 2 during interaction with BSA was also studied. From the fluorescence studies, thermodynamic parameters such as Gibb's free energy (ΔG), entropy change (ΔS) and enthalpy change (ΔH) were calculated at five different temperatures (viz., 298, 303, 308, 313 or 318 K) for the HAs-BSA interaction. The results suggested that the binding process was enthalpy driven with dominating hydrogen bonds and van der Waals' interactions for both compounds. Warfarin (WF) and ibuprofen (IB) were used for competitive site-specific marker binding interaction and revealed that compound 1 and compound 2 were located in subdomain IIA (Sudlow's site I) on the BSA molecule. Conclusions based on above-applied techniques signify that various non-covalent forces were involved during the HAs-BSA interaction. Therefore the resulted HAs-BSA interaction manifested its effect in transportation, distribution and metabolism for the drug in the blood circulation system, therefore establishing HAs as a drug-like molecule.
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Affiliation(s)
- Rainy Agrawal
- School of Studies in Chemistry, Pt. Ravishankar Shukla University, Raipur, Chhattisgarh, India
| | | | - Yamini Thakur
- School of Studies in Chemistry, Pt. Ravishankar Shukla University, Raipur, Chhattisgarh, India
| | - Mamta Tripathi
- School of Studies in Chemistry, Pt. Ravishankar Shukla University, Raipur, Chhattisgarh, India
| | | | - Rizwan Hasan Khan
- Interdisciplinary Biotechnology Unit, Aligarh Muslim University, Aligarh, 202002, Uttar Pradesh, India
| | - Rama Pande
- School of Studies in Chemistry, Pt. Ravishankar Shukla University, Raipur, Chhattisgarh, India
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Lai L, Wei XQ, Huang WH, Mei P, Ren ZH, Liu Y. Impact of carbon quantum dots on dynamic properties of BSA and BSA/DPPC adsorption layers. J Colloid Interface Sci 2017; 506:245-254. [DOI: 10.1016/j.jcis.2017.07.046] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2017] [Revised: 07/09/2017] [Accepted: 07/15/2017] [Indexed: 10/19/2022]
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Cao H, Yi Y. Study on the interaction of chromate with bovine serum albumin by spectroscopic method. Biometals 2017; 30:529-539. [PMID: 28523598 DOI: 10.1007/s10534-017-0022-1] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2017] [Accepted: 05/10/2017] [Indexed: 12/22/2022]
Abstract
The interaction between two chromates [sodium chromate (Na2CrO4) and potassium chromate K2CrO4)] and bovine serum albumin (BSA) in physiological buffer (pH 7.4) was investigated by the fluorescence quenching technique. The results of fluorescence titration revealed that two chromates could strongly quench the intrinsic fluorescence of BSA through a static quenching procedure. The apparent binding constants K and number of binding sites n of chromate with BSA were obtained by the fluorescence quenching method. The thermodynamic parameters enthalpy change (ΔH), entropy change (ΔS) were negative, indicating that the interaction of two chromates with BSA was driven mainly by van der Waals forces and hydrogen bonds. The process of binding was a spontaneous process in which Gibbs free energy change was negative. The distance r between donor (BSA) and acceptor (chromate) was calculated based on Forster's non-radiative energy transfer theory. The results of UV-Vis absorption, synchronous fluorescence, three-dimensional fluorescence and circular dichroism (CD) spectra showed that two chromates induced conformational changes of BSA.
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Affiliation(s)
- Hongguang Cao
- College of Land and Environment, Shenyang Agricultural University, Shenyang, 110866, China
| | - Yanli Yi
- College of Land and Environment, Shenyang Agricultural University, Shenyang, 110866, China.
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Lai L, Li SJ, Feng J, Mei P, Ren ZH, Chang YL, Liu Y. Effects of Surface Charges on the Bactericide Activity of CdTe/ZnS Quantum Dots: A Cell Membrane Disruption Perspective. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2017; 33:2378-2386. [PMID: 28178781 DOI: 10.1021/acs.langmuir.7b00173] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
The inhibitory effects of CdTe/ZnS quantum dots (QDs) modified with 3-mercaptopropionic acid (negatively charged) or cysteamine (positively charged) on the metabolic activity of Escherichia coli were investigated using biological microcalorimetry. Results show that the inhibitory ratio of positive QDs is higher than that of negative QDs. Transmission electron microscopy images indicate that QDs are prone to be adsorbed on the surface of E. coli. This condition disturbs the membrane structure and function of E. coli. Fluorescence anisotropy results demonstrate that positive QDs show a significant increase in the membrane fluidity of E. coli and dipalmitoylphosphatidylcholine (DPPC) model membrane. Furthermore, fluorescence anisotropy values of DPPC membrane in the gel phase decreased upon the addition of positive QDs. By contrast, anisotropy values in the liquid-crystalline phase are almost constant. The change in membrane fluidity is associated with the increased permeability of the membrane. Finally, the kinetics of dye leakage from liposomes demonstrate that the surface charge of QDs is crucial to the interaction between QDs and membrane.
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Affiliation(s)
- Lu Lai
- College of Chemistry and Environmental Engineering, Yangtze University , Jingzhou, Hubei 434023, P. R. China
| | - Sheng-Jin Li
- College of Chemistry and Environmental Engineering, Yangtze University , Jingzhou, Hubei 434023, P. R. China
| | - Jing Feng
- College of Chemistry and Environmental Engineering, Yangtze University , Jingzhou, Hubei 434023, P. R. China
| | - Ping Mei
- College of Chemistry and Environmental Engineering, Yangtze University , Jingzhou, Hubei 434023, P. R. China
| | - Zhao-Hua Ren
- College of Chemistry and Environmental Engineering, Yangtze University , Jingzhou, Hubei 434023, P. R. China
| | - Yan-Ling Chang
- College of Chemistry and Environmental Engineering, Yangtze University , Jingzhou, Hubei 434023, P. R. China
| | - Yi Liu
- State Key Laboratory of Virology & Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education), College of Chemistry and Molecule Sciences, Wuhan University , Wuhan 430072, P. R. China
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Comprehensive spectroscopic probing the interaction and conformation impairment of bovine serum albumin (BSA) by herbicide butachlor. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY 2016; 162:332-339. [DOI: 10.1016/j.jphotobiol.2016.07.005] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/11/2016] [Revised: 07/04/2016] [Accepted: 07/07/2016] [Indexed: 11/27/2022]
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Wang L, Song J, Liu S, Hao C, Kuang N, He Y. Reaction analysis on Yb3+ and DNA based on quantum dots: The design of a fluorescent reversible off–on mode. J Colloid Interface Sci 2015; 457:162-8. [DOI: 10.1016/j.jcis.2015.07.011] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2015] [Revised: 07/06/2015] [Accepted: 07/07/2015] [Indexed: 01/09/2023]
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Shu C, Ding L, Zhong W. Fluorescence resonance energy transfer between ZnSe ZnS quantum dots and bovine serum albumin in bioaffinity assays of anticancer drugs. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2014; 131:195-202. [PMID: 24835726 DOI: 10.1016/j.saa.2014.04.029] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/20/2013] [Revised: 03/23/2014] [Accepted: 04/06/2014] [Indexed: 06/03/2023]
Abstract
In the current work, using ZnSe ZnS quantum dots (QDs) as representative nanoparticles, the affinities of seven anticancer drugs for bovine serum albumin (BSA) were studied using fluorescence resonance energy transfer (FRET). The FRET efficiency of BSA-QD conjugates can reach as high as 24.87% by electrostatic interaction. The higher binding constant (3.63×10(7)Lmol(-1)) and number of binding sites (1.75) between ZnSe ZnS QDs and BSA demonstrated that the QDs could easily associate to plasma proteins and enhance the transport efficacy of drugs. The magnitude of binding constants (10(3)-10(6)Lmol(-1)), in the presence of QDs, was between drugs-BSA and drugs-QDs in agreement with common affinities of drugs for serum albumins (10(4)-10(6)Lmol(-1)) in vivo. ZnSe ZnS QDs significantly increased the affinities for BSA of Vorinostat (SAHA), Docetaxel (DOC), Carmustine (BCNU), Doxorubicin (Dox) and 10-Hydroxycamptothecin (HCPT). However, they slightly reduced the affinities of Vincristine (VCR) and Methotrexate (MTX) for BSA. The recent work will not only provide useful information for appropriately understanding the binding affinity and binding mechanism at the molecular level, but also illustrate the ZnSe ZnS QDs are perfect candidates for nanoscal drug delivery system (DDS).
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Affiliation(s)
- Chang Shu
- Department of Analytical Chemistry, China Pharmaceutical University, Nanjing 210009, PR China
| | - Li Ding
- Department of Pharmaceutical Analysis, China Pharmaceutical University, Nanjing 210009, PR China.
| | - Wenying Zhong
- Department of Analytical Chemistry, China Pharmaceutical University, Nanjing 210009, PR China.
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