1
|
Mbenga Tjegbe MJ, Ateba BA, Daniel L, Azébazé AGB, Assongo Kenfack C. Binding of Mammea A/AA (MA) to calf thymus DNA revealed by the ratiometric absorbance of MA in the UV-visible range molecular dynamic simulations and TD-DFT calculations. J Biomol Struct Dyn 2024; 42:7233-7242. [PMID: 37639731 DOI: 10.1080/07391102.2023.2249983] [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: 02/27/2023] [Accepted: 07/15/2023] [Indexed: 08/31/2023]
Abstract
The in vitro anti-proliferative activity of MA (5,7-dihydroxy-8-(3-methylbut-2-enyl)-6-(3-methyl-1-oxobutyl)-4-phenyl[1]2H-[1]benzopyran-2-one)on a variety of cancer cells was previously demonstrated. This work strives to understand the mechanisms by which MA exerts this biological activity. Thereafter, the binding of MA to calf thymus DNA was studied by monitoring the change in the UV-visible absorbance of MA. It was found that, the response of MA to binding with calf thymus DNA is characterised by an increase in the AS/AL ratio of the absorbance of the longest wavelength absorption band to the shortest one, and the appearance of a new band at about 377 nm assigned to S0→S1 transition, which is red shifted as compared to free MA. From the bands ratio, the binding constant is found to be 4.3x105 M-1, indicating strong binding. The deduced binding free energy, enthalpy and entropy are -7.7 kcal/mol, -10.89 ± 0.28 kcal/mol and -54.46 ± 4 J/K, respectively, indicating that MA binds to DNA by a non-bonding Van der Waals type interactions and hydrogen bonds. Further study with classical molecular dynamics shows that MA binds to DNA by intercalation, where it is positioned between two AT base pairs. Unlike isolated MA, TDDFT calculations on ten images extracted from the MD trajectory show that, the frontier molecular orbitals of the complex are distributed over the DNA and MA. This indicates a strong stacking interaction and then explains the hypochromism and the red shift of the S0→S1 transition. The present work demonstrates the potency of MA as antitumor compound and as absorbance-based molecular probe.Communicated by Ramaswamy H. Sarma.
Collapse
Affiliation(s)
- Mathieu Jules Mbenga Tjegbe
- Laboratoire Optique et Applications, Centre de Physique Atomique Moléculaire et Optique Quantique, Faculté des Sciences, Université de Douala, Douala, Cameroon
- Laboratoire de Chimie, Département de Chimie, Faculté des Sciences, Université de Douala, Douala, Cameroon
| | - Baruch Amana Ateba
- Laboratoire de Chimie, Département de Chimie, Faculté des Sciences, Université de Douala, Douala, Cameroon
| | - Lissouck Daniel
- Laboratoire Optique et Applications, Centre de Physique Atomique Moléculaire et Optique Quantique, Faculté des Sciences, Université de Douala, Douala, Cameroon
- Department of Renewable Energy, Higher Technical Teachers' Training College, University of Buea, Kumba, Cameroon
| | - Anatole Guy Blaise Azébazé
- Laboratoire de Chimie, Département de Chimie, Faculté des Sciences, Université de Douala, Douala, Cameroon
| | - Cyril Assongo Kenfack
- Laboratoire Optique et Applications, Centre de Physique Atomique Moléculaire et Optique Quantique, Faculté des Sciences, Université de Douala, Douala, Cameroon
| |
Collapse
|
2
|
Pantelic L, Skaro Bogojevic S, Andrejević TP, Pantović BV, Marković VR, Ašanin DP, Milanović Ž, Ilic-Tomic T, Nikodinovic-Runic J, Glišić BĐ, Lazic J. Copper(II) and Zinc(II) Complexes with Bacterial Prodigiosin Are Targeting Site III of Bovine Serum Albumin and Acting as DNA Minor Groove Binders. Int J Mol Sci 2024; 25:8395. [PMID: 39125963 PMCID: PMC11313072 DOI: 10.3390/ijms25158395] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2024] [Revised: 07/23/2024] [Accepted: 07/24/2024] [Indexed: 08/12/2024] Open
Abstract
The negative environmental and social impacts of food waste accumulation can be mitigated by utilizing bio-refineries' approach where food waste is revalorized into high-value products, such as prodigiosin (PG), using microbial bioprocesses. The diverse biological activities of PG position it as a promising compound, but its high production cost and promiscuous bioactivity hinder its wide application. Metal ions can modulate the electronic properties of organic molecules, leading to novel mechanisms of action and increased target potency, while metal complex formation can improve the stability, solubility and bioavailability of the parent compound. The objectives of this study were optimizing PG production through bacterial fermentation using food waste, allowing good quantities of the pure natural product for further synthesizing and evaluating copper(II) and zinc(II) complexes with it. Their antimicrobial and anticancer activities were assessed, and their binding affinity toward biologically important molecules, bovine serum albumin (BSA) and DNA was investigated by fluorescence emission spectroscopy and molecular docking. The yield of 83.1 mg/L of pure PG was obtained when processed meat waste at 18 g/L was utilized as the sole fermentation substrate. The obtained complexes CuPG and ZnPG showed high binding affinity towards target site III of BSA, and molecular docking simulations highlighted the affinity of the compounds for DNA minor grooves.
Collapse
Affiliation(s)
- Lena Pantelic
- Institute of Molecular Genetics and Genetic Engineering, University of Belgrade, Vojvode Stepe 444a, 11000 Belgrade, Serbia; (L.P.); (S.S.B.); (T.I.-T.); (J.N.-R.)
| | - Sanja Skaro Bogojevic
- Institute of Molecular Genetics and Genetic Engineering, University of Belgrade, Vojvode Stepe 444a, 11000 Belgrade, Serbia; (L.P.); (S.S.B.); (T.I.-T.); (J.N.-R.)
| | - Tina P. Andrejević
- Department of Chemistry, Faculty of Science, University of Kragujevac, Radoja Domanovića 12, 34000 Kragujevac, Serbia; (T.P.A.); (B.V.P.); (V.R.M.)
| | - Bojana V. Pantović
- Department of Chemistry, Faculty of Science, University of Kragujevac, Radoja Domanovića 12, 34000 Kragujevac, Serbia; (T.P.A.); (B.V.P.); (V.R.M.)
| | - Violeta R. Marković
- Department of Chemistry, Faculty of Science, University of Kragujevac, Radoja Domanovića 12, 34000 Kragujevac, Serbia; (T.P.A.); (B.V.P.); (V.R.M.)
| | - Darko P. Ašanin
- Department of Science, Institute for Information Technologies Kragujevac, University of Kragujevac, Jovana Cvijića bb, 34000 Kragujevac, Serbia; (D.P.A.); (Ž.M.)
| | - Žiko Milanović
- Department of Science, Institute for Information Technologies Kragujevac, University of Kragujevac, Jovana Cvijića bb, 34000 Kragujevac, Serbia; (D.P.A.); (Ž.M.)
| | - Tatjana Ilic-Tomic
- Institute of Molecular Genetics and Genetic Engineering, University of Belgrade, Vojvode Stepe 444a, 11000 Belgrade, Serbia; (L.P.); (S.S.B.); (T.I.-T.); (J.N.-R.)
| | - Jasmina Nikodinovic-Runic
- Institute of Molecular Genetics and Genetic Engineering, University of Belgrade, Vojvode Stepe 444a, 11000 Belgrade, Serbia; (L.P.); (S.S.B.); (T.I.-T.); (J.N.-R.)
| | - Biljana Đ. Glišić
- Department of Chemistry, Faculty of Science, University of Kragujevac, Radoja Domanovića 12, 34000 Kragujevac, Serbia; (T.P.A.); (B.V.P.); (V.R.M.)
| | - Jelena Lazic
- Institute of Molecular Genetics and Genetic Engineering, University of Belgrade, Vojvode Stepe 444a, 11000 Belgrade, Serbia; (L.P.); (S.S.B.); (T.I.-T.); (J.N.-R.)
| |
Collapse
|
3
|
Mallem SPR, Puneetha P, Lee DY, An SJ. Strain-Modulated Flexible Bio-Organic/Graphene/PET Sensors Based on DNA-Curcumin Biopolymer. Biomolecules 2024; 14:698. [PMID: 38927101 PMCID: PMC11201641 DOI: 10.3390/biom14060698] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2024] [Revised: 06/12/2024] [Accepted: 06/12/2024] [Indexed: 06/28/2024] Open
Abstract
In recent years, there has been growing interest in the development of metal-free, environmentally friendly, and cost-effective biopolymer-based piezoelectric strain sensors (bio-PSSs) for flexible applications. In this study, we have developed a bio-PSS based on pure deoxyribonucleic acid (DNA) and curcumin materials in a thin-film form and studied its strain-induced current-voltage characteristics based on piezoelectric phenomena. The bio-PSS exhibited flexibility under varying compressive and tensile loads. Notably, the sensor achieved a strain gauge factor of 407 at an applied compressive strain of -0.027%, which is 8.67 times greater than that of traditional metal strain gauges. Furthermore, the flexible bio-PSS demonstrated a rapid response under a compressive strain of -0.08%. Our findings suggest that the proposed flexible bio-PSS holds significant promise as a motion sensor, addressing the demand for environmentally safe, wearable, and flexible strain sensor applications.
Collapse
Affiliation(s)
- Siva Pratap Reddy Mallem
- Advanced Material Research Center, Kumoh National Institute of Technology, Gumi 39177, Republic of Korea;
| | - Peddathimula Puneetha
- Department of Robotics and Intelligent Machine Engineering, College of Mechanical and IT Engineering, Yeungnam University, Gyeongsan 38541, Republic of Korea;
| | - Dong Yeon Lee
- Department of Robotics and Intelligent Machine Engineering, College of Mechanical and IT Engineering, Yeungnam University, Gyeongsan 38541, Republic of Korea;
| | - Sung Jin An
- Department of Materials Science and Engineering, Kumoh National Institute of Technology, Gumi 39177, Republic of Korea
| |
Collapse
|
4
|
Quraishi S, Saha D, Kumari K, Jha AN, Roy AS. Non-covalent binding interaction of bioactive coumarin esculetin with calf thymus DNA and yeast transfer RNA: A detailed investigation to decipher the binding affinities, binding location, interacting forces and structural alterations at a molecular level. Int J Biol Macromol 2024; 257:128568. [PMID: 38061533 DOI: 10.1016/j.ijbiomac.2023.128568] [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: 11/07/2023] [Revised: 11/28/2023] [Accepted: 11/30/2023] [Indexed: 01/26/2024]
Abstract
Esculetin is a well-known coumarin derivative found abundantly in nature possessing an extensive array of pharmacological and therapeutic properties. Consequently, to comprehend its molecular recognition mechanism, our objective is to conduct a complete investigation of its interactions with the nucleic acid, specifically ct-DNA, and t-RNA, using spectroscopic and computational techniques. The intrinsic fluorescence of esculetin is quenched when it interacts with ct-DNA and t-RNA, and this occurs through a static quenching mechanism. The thermodynamic parameters demonstrated that the interaction is influenced by hydrogen bonding and weak van der Waals forces. CD and FT-IR results revealed no conformational changes in ct-DNA and t-RNA structure on binding with esculetin. Furthermore, competitive displacement assay with ethidium bromide, melting temperature, viscosity measurement, and potassium iodide quenching experiments, reflected that esculetin probably binds to the minor groove of ct-DNA. The molecular docking results provided further confirmation for the spectroscopic findings, including the binding location of esculetin and binding energies of esculetin complexes with ct-DNA and t-RNA. Molecular dynamics simulation studies demonstrated the conformational stability and flexibility of nucleic acids.
Collapse
Affiliation(s)
- Sana Quraishi
- Department of Chemistry, National Institute of Technology Meghalaya, Shillong 793003, India
| | - Debanjan Saha
- Department of Molecular Biology and Biotechnology, Tezpur University, Tezpur 784028, India
| | - Kalpana Kumari
- Department of Biosciences and Bioengineering, Indian Institute of Technology Guwahati, Guwahati 781039, India
| | - Anupam Nath Jha
- Department of Molecular Biology and Biotechnology, Tezpur University, Tezpur 784028, India.
| | - Atanu Singha Roy
- Department of Chemistry, National Institute of Technology Meghalaya, Shillong 793003, India.
| |
Collapse
|
5
|
Lavanya K, Saranya J, Bodapati ATS, Reddy RS, Madku SR, Sahoo BK. Biophysical insights on the interaction of anticoagulant drug dicoumarol with calf thymus-DNA: deciphering the binding mode and binding force with thermodynamics. J Biomol Struct Dyn 2024; 42:1392-1403. [PMID: 37038635 DOI: 10.1080/07391102.2023.2199872] [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: 09/13/2022] [Accepted: 03/31/2023] [Indexed: 04/12/2023]
Abstract
The biological activity of drugs is exhibited due to their interactions with bio-receptors. Dicoumarol (DIC) is a natural hydroxycoumarin and a well-known anticoagulant. DNA is the genetic material and one of the targets of numerous drugs. The interaction of DIC with calf-thymus DNA (ct-DNA) has been studied using different biophysical techniques and docking studies. The binding constant in the order of 103 to 104 M-1 was observed from spectroscopic studies. Thermodynamic studies at 4 different temperatures revealed the spontaneity of the interaction with the entropy-driven process. Marker displacement studies with competitive markers of intercalators (ethidium bromide) and groove binders (Hoechst 33258) confirmed the groove-binding nature of DIC in DNA. The groove-binding mode of DIC was complemented by different studies like viscosity measurements, DNA melting, and the effect of KI on the binding. A minor perturbation in the DNA viscosity and no significant change in the DNA melting temperature (Tm) after binding with DIC further confirms the groove binding mode. The effect of KI on the DIC and DIC-DNA system suggested the absence of DIC intercalation. The absence of significant electrostatic force was revealed from the ionic-strength effect study. Binding-induced conformational variation in ct-DNA was absent in circular dichroism studies. Molecular docking studies suggested the position of DIC within the minor groove of ct-DNA, covering three base pairs long. The outcome of this report may help in understanding the pharmacodynamics and pharmacokinetics of dicoumarol analogs and related molecules.Communicated by Ramaswamy H. Sarma.
Collapse
Affiliation(s)
- K Lavanya
- Department of H&S (Chemistry), Gokaraju Rangaraju Institute of Engineering and Technology, Hyderabad, India
- Department of Chemistry, GITAM School of Science, GITAM Deemed to be University Hyderabad Campus, Hyderabad, India
| | - Jagadeesan Saranya
- Department of H&S (Chemistry), Gokaraju Rangaraju Institute of Engineering and Technology, Hyderabad, India
| | - Anna Tanuja Safala Bodapati
- Department of Chemistry, GITAM School of Science, GITAM Deemed to be University Hyderabad Campus, Hyderabad, India
- Chemistry Division, BS&H Department, BVRIT College of Engineering for Women, Hyderabad, India
| | - Ragaiahgari Srinivas Reddy
- Department of Chemistry, GITAM School of Science, GITAM Deemed to be University Hyderabad Campus, Hyderabad, India
- Department of Chemistry, B. V. Raju Institute of Technology (BVRIT), Narsapur, India
| | - Shravya Rao Madku
- Department of Chemistry, GITAM School of Science, GITAM Deemed to be University Hyderabad Campus, Hyderabad, India
- Department of Chemistry, St. Francis College for Women, Hyderabad, India
| | - Bijaya Ketan Sahoo
- Department of Chemistry, GITAM School of Science, GITAM Deemed to be University Hyderabad Campus, Hyderabad, India
| |
Collapse
|
6
|
Sahoo BK, Velavalapalli VM. Assessing Partial Inhibition of Ribonuclease A Activity by Curcumin through Fluorescence Spectroscopy and Theoretical Studies. J Fluoresc 2023:10.1007/s10895-023-03474-y. [PMID: 37870732 DOI: 10.1007/s10895-023-03474-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2023] [Accepted: 10/12/2023] [Indexed: 10/24/2023]
Abstract
Molecular interactions and controlled expression of enzymatic activities are fundamental to all cellular functions in an organism. The active polyphenol in turmeric known as curcumin (CCM) is known to exhibit diverse pharmacological activities. Ribonucleases (RNases) are the hydrolytic enzymes that plays important role in ribonucleic acid (RNA) metabolism. Uncontrolled and unwanted cleavage of RNA by RNases may be the cause of cell death leading to disease states. The protein ribonuclease A (RNase A) in the superfamily of RNases cleaves the RNA besides its role in different diseases like autoimmune diseases, and pancreatic disorders. Interaction of CCM with RNase A have been reported along with the possible role of CCM to inhibit the RNase A enzymatic activity. The interaction strength was found to be 104 M-1 order from spectroscopic results. Quenching of RNase A fluorescence by CCM was 104 M-1 order. Non-radiative energy transfer from RNase A (donor) to CCM (acceptor) suggested a distance of 2.42 nm between the donor-acceptor pair. Circular dichroism studies revealed no structural changes in RNase A after binding. Binding-induced conformational variation in protein was observed from synchronous fluorescence studies. Agarose gel electrophoresis revealed a partial inhibition of the RNase A activity by CCM though not significant. Molecular docking and molecular dynamics studies suggested the residues of RNase A involved in the interaction with supporting the experimental finding for the partial inhibition of the enzyme activity. This study may help in designing new CCM analogues or related structures to understand their differential inhibition of the RNase A activity.
Collapse
Affiliation(s)
- Bijaya Ketan Sahoo
- Department of Chemistry, School of Science, GITAM Deemed to be University, Hyderabad, 502329, India.
| | | |
Collapse
|
7
|
Lavanya K, Babu PV, Bodapati ATS, Reddy RS, Madku SR, Sahoo BK. Binding of dicoumarol analog with DNA and its antioxidant studies: A biophysical insight by in-vitro and in-silico approaches. Int J Biol Macromol 2023:125301. [PMID: 37315662 DOI: 10.1016/j.ijbiomac.2023.125301] [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: 04/16/2023] [Revised: 05/24/2023] [Accepted: 05/25/2023] [Indexed: 06/16/2023]
Abstract
DNA is the major target for a number of pharmaceutical drugs. The interaction of drug molecules with DNA plays a major role in pharmacokinetics and pharmacodynamics. Bis-coumarin derivatives have diverse biological properties. Here, we have explored the antioxidant activity of 3,3'-Carbonylbis (7-diethylamino coumarin) (CDC) using DPPH, H2O2, and superoxide scavenging studies followed by its binding mode in calf thymus-DNA (CT-DNA) using several biophysical methods including molecular docking. CDC exhibited comparable antioxidant activity to standard ascorbic acid. The UV-Visible and fluorescence spectral variations indicate the CDC-DNA complex formation. The binding constant in the range of 104 M-1 was obtained from spectroscopic studies at room temperature. The fluorescence quenching of CDC by CT-DNA suggested a quenching constant (KSV) of 103 to 104 M-1 order. Thermodynamic studies at 303, 308, and 318 K revealed the observed quenching as a dynamic process besides the spontaneity of the interaction with negative free energy change. Competitive binding studies with site markers like ethidium bromide, methylene blue, and Hoechst 33258 reflect CDC's groove mode of interaction. The result was complemented by DNA melting study, viscosity measurement, and KI quenching studies. The ionic strength effect was studied to interpret the electrostatic interaction and found its insignificant role in the binding. Molecular docking studies suggested the binding location of CDC within the minor groove of CT-DNA, complementing the experimental result.
Collapse
Affiliation(s)
- K Lavanya
- Department of Chemistry, GITAM School of Science, GITAM Deemed to be University Hyderabad Campus, 502329, India
| | - Pratap Veeresh Babu
- Department of Pharmacology, Gokaraju Rangaraju College of Pharmacy, Bachupally, Hyderabad, Telangana 500090, India
| | - Anna Tanuja Safala Bodapati
- Department of Chemistry, GITAM School of Science, GITAM Deemed to be University Hyderabad Campus, 502329, India; Chemistry Division, BS&H Department, BVRIT College of Engineering for Women, Hyderabad 500090, India
| | - Ragaiahgari Srinivas Reddy
- Department of Chemistry, GITAM School of Science, GITAM Deemed to be University Hyderabad Campus, 502329, India; Department of Chemistry, B V Raju Institute of Technology (BVRIT), Narsapur 502313, India
| | - Shravya Rao Madku
- Department of Chemistry, GITAM School of Science, GITAM Deemed to be University Hyderabad Campus, 502329, India; Department of Chemistry, St. Francis College for Women, Hyderabad 500016, India
| | - Bijaya Ketan Sahoo
- Department of Chemistry, GITAM School of Science, GITAM Deemed to be University Hyderabad Campus, 502329, India.
| |
Collapse
|
8
|
Mondal S, Panda R, Das S, Sultana F, Dutta S, Mondal MA. Synthesis and ct-DNA Binding Study of a Donor–π-Acceptor Dihydropyrimidinone Fluorophore. J Mol Struct 2023. [DOI: 10.1016/j.molstruc.2023.135438] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/29/2023]
|
9
|
Andrejević TP, Aleksic I, Kljun J, Počkaj M, Zlatar M, Vojnovic S, Nikodinovic-Runic J, Turel I, Djuran MI, Glišić BĐ. Copper(ii) and silver(i) complexes with dimethyl 6-(pyrazine-2-yl)pyridine-3,4-dicarboxylate (py-2pz): the influence of the metal ion on the antimicrobial potential of the complex. RSC Adv 2023; 13:4376-4393. [PMID: 36744286 PMCID: PMC9890663 DOI: 10.1039/d2ra07401j] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2022] [Accepted: 01/19/2023] [Indexed: 02/04/2023] Open
Abstract
Dimethyl 6-(pyrazine-2-yl)pyridine-3,4-dicarboxylate (py-2pz) was used as a ligand for the synthesis of new copper(ii) and silver(i) complexes, [CuCl2(py-2pz)]2 (1), [Cu(CF3SO3)(H2O)(py-2pz)2]CF3SO3·2H2O (2), [Ag(py-2pz)2]PF6 (3) and {[Ag(NO3)(py-2pz)]·0.5H2O} n (4). The complexes were characterized by spectroscopic and electrochemical methods, while their structures were determined by single crystal X-ray diffraction analysis. The X-ray analysis revealed the bidentate coordination mode of py-2pz to the corresponding metal ion via its pyridine and pyrazine nitrogen atoms in all complexes, while in polynuclear complex 4, the heterocyclic pyrazine ring of one py-2pz additionally behaves as a bridging ligand between two Ag(i) ions. DFT calculations were performed to elucidate the structures of the investigated complexes in solution. The antimicrobial potential of the complexes 1-4 was evaluated against two bacterial (Pseudomonas aeruginosa and Staphylococcus aureus) and two Candida (C. albicans and C. parapsilosis) species. Silver(i) complexes 3 and 4 have shown good antibacterial and antifungal properties with minimal inhibitory concentration (MIC) values ranging from 4.9 to 39.0 μM (3.9-31.2 μg mL-1). All complexes inhibited the filamentation of C. albicans and hyphae formation, while silver(i) complexes 3 and 4 had also the ability to inhibit the biofilm formation process of this fungus. The binding affinity of the complexes 1-4 with calf thymus DNA (ct-DNA) and bovine serum albumin (BSA) was studied by fluorescence emission spectroscopy to clarify the mode of their antimicrobial activity. Catechol oxidase biomimetic catalytic activity of copper(ii) complexes 1 and 2 was additionally investigated by using 3,5-di-tert-butylcatechol (3,5-DTBC) and o-aminophenol (OAP) as substrates.
Collapse
Affiliation(s)
- Tina P Andrejević
- Department of Chemistry, Faculty of Science, University of Kragujevac R. Domanovića 12 34000 Kragujevac Serbia
| | - Ivana Aleksic
- Institute of Molecular Genetics and Genetic Engineering, University of Belgrade Vojvode Stepe 444a 11042 Belgrade Serbia
| | - Jakob Kljun
- Faculty of Chemistry and Chemical Technology, University of Ljubljana Večna Pot 113 Ljubljana SI-1000 Slovenia
| | - Marta Počkaj
- Faculty of Chemistry and Chemical Technology, University of Ljubljana Večna Pot 113 Ljubljana SI-1000 Slovenia
| | - Matija Zlatar
- Department of Chemistry, University of Belgrade-Institute of Chemistry, Technology and Metallurgy Njegoševa 12 11000 Belgrade Serbia
| | - Sandra Vojnovic
- Institute of Molecular Genetics and Genetic Engineering, University of Belgrade Vojvode Stepe 444a 11042 Belgrade Serbia
| | - Jasmina Nikodinovic-Runic
- Institute of Molecular Genetics and Genetic Engineering, University of Belgrade Vojvode Stepe 444a 11042 Belgrade Serbia
| | - Iztok Turel
- Faculty of Chemistry and Chemical Technology, University of Ljubljana Večna Pot 113 Ljubljana SI-1000 Slovenia
| | - Miloš I Djuran
- Serbian Academy of Sciences and Arts Knez Mihailova 35 11000 Belgrade Serbia
| | - Biljana Đ Glišić
- Department of Chemistry, Faculty of Science, University of Kragujevac R. Domanovića 12 34000 Kragujevac Serbia
| |
Collapse
|
10
|
Madku SR, Sahoo BK, Lavanya K, Reddy RS, Bodapati ATS. DNA binding studies of antifungal drug posaconazole using spectroscopic and molecular docking methods. Int J Biol Macromol 2023; 225:745-756. [PMID: 36414083 DOI: 10.1016/j.ijbiomac.2022.11.137] [Citation(s) in RCA: 8] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2022] [Revised: 10/15/2022] [Accepted: 11/10/2022] [Indexed: 11/21/2022]
Abstract
The binding studies of DNA with small molecules have been an emerging field of research all the time since DNA as the genetic material is a major biological target for various drugs. Interpretation of small molecule-DNA binding helps in understanding their interactions with designing new drugs of greater medicinal activity. Posaconazole is an antifungal drug in the class of triazoles which are known to possess numerous pharmacological properties. In this work, the nature of the binding of posaconazole with calf-thymus DNA has been studied using spectroscopic techniques and molecular docking studies. A binding constant of the order of 103 M-1 was observed from UV-visible and fluorescence studies for the interaction between posaconazole and calf-thymus DNA. The fluorescence property of posaconazole was found to be quenched by calf-thymus DNA with a quenching constant of the order of 103 M-1. Competitive displacement of ethidium bromide and Hoechst 33258 by posaconazole using fluorescence technique suggested minor groove binding of posaconazole in calf-thymus DNA. Confirmation of the binding mode was further complemented by the viscosity measurement and DNA melting studies followed by KI quenching experiments. The studies on the effect of ionic strength on the binding suggested a possible role of electrostatic force in the interaction. Molecular docking studies reflected a crescent shape of the posaconazole within the minor groove of calf-thymus DNA validating the experimental findings showing the residues involved in the interaction.
Collapse
Affiliation(s)
- Shravya Rao Madku
- Department of Chemistry, St. Francis College for Women, Hyderabad 500016, India; Department of Chemistry, GITAM School of Science, GITAM Deemed to be University Hyderabad Campus, 502329, India
| | - Bijaya Ketan Sahoo
- Department of Chemistry, GITAM School of Science, GITAM Deemed to be University Hyderabad Campus, 502329, India.
| | - K Lavanya
- Department of Chemistry, GITAM School of Science, GITAM Deemed to be University Hyderabad Campus, 502329, India; Department of H&S (Chemistry), Gokaraju Rangaraju Institute of Engineering and Technology, Hyderabad 500090, India
| | - Ragaiahgari Srinivas Reddy
- Department of Chemistry, GITAM School of Science, GITAM Deemed to be University Hyderabad Campus, 502329, India; Department of Chemistry, B V Raju Institute of Technology (BVRIT), Narsapur 502313, India
| | - Anna Tanuja Safala Bodapati
- Department of Chemistry, GITAM School of Science, GITAM Deemed to be University Hyderabad Campus, 502329, India; Chemistry Division, BS&H Department, BVRIT College of Engineering for Women, Hyderabad 500090, India
| |
Collapse
|
11
|
Güngör SA, Tümer M, Köse M, Erkan S. N-substituted benzenesulfonamide compounds: DNA binding properties and molecular docking studies. J Biomol Struct Dyn 2022; 40:7424-7438. [PMID: 33704019 DOI: 10.1080/07391102.2021.1897683] [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] [Received: 12/02/2020] [Accepted: 02/25/2021] [Indexed: 10/21/2022]
Abstract
Benzenesulfonamide-based imine compounds 5-8 were prepared and screened for their binding properties to the FSdsDNA. The structures of synthesized compounds were elucidated by the spectroscopic and analytical methods. Compounds 5-8 were screened for their interactions with the FSdsDNA. Compound 8 showed the highest binding affinity to the FSdsDNA with intrinsic binding constant of 3.10 × 104 M-1. The compounds caused the quenching of the DNA-EB emission indicating displacement of EB (ethidium bromide) from the FSdsDNA. Finally, the binding interactions between the DNA and binder molecules 5-8 were examined by the molecular docking studies. The compounds locate approximately same region of the minor groove of DNA via hydrogen bonding contacts between the sulfonamide oxygen atoms and the DG10/DG16 nucleotides of DNA.Communicated by Ramaswamy H. Sarma.
Collapse
Affiliation(s)
- Seyit Ali Güngör
- Chemistry Department, K.Maras Sütcü Imam University, K.Maras, Turkey
| | - Mehmet Tümer
- Chemistry Department, K.Maras Sütcü Imam University, K.Maras, Turkey
| | - Muhammet Köse
- Chemistry Department, K.Maras Sütcü Imam University, K.Maras, Turkey
| | - Sultan Erkan
- Department of Chemistry and Chemical Processing Technologies, Sivas Cumhuriyet University Yıldızeli Vocational School, Sivas, Turkey
| |
Collapse
|
12
|
Mohammadlou F, Mansouri-Torshizi H, Dehghanian E, Abdi K. Synthesis, Characterization, Cytotoxicity and DNA/BSA Interaction of Pd(II) Complexes with Alkyl-Amine and 1,10-Phenanthroline. Polycycl Aromat Compd 2022. [DOI: 10.1080/10406638.2022.2124283] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/14/2022]
Affiliation(s)
- Farahnaz Mohammadlou
- Department of Chemistry, Faculty of Science, University of Sistan and Baluchestan, Zahedan, Iran
| | - Hassan Mansouri-Torshizi
- Department of Chemistry, Faculty of Science, University of Sistan and Baluchestan, Zahedan, Iran
| | - Effat Dehghanian
- Department of Chemistry, Faculty of Science, University of Sistan and Baluchestan, Zahedan, Iran
| | - Khatereh Abdi
- Department of Chemistry, Faculty of Science, University of Sistan and Baluchestan, Zahedan, Iran
| |
Collapse
|
13
|
Sehrawat H, Kumar N, Panchal S, Kumar L, Chandra R. Imperative persistent interaction analysis of anticancer noscapine-ionic liquid with calf thymus DNA. Int J Biol Macromol 2022; 220:415-425. [PMID: 35985396 DOI: 10.1016/j.ijbiomac.2022.08.106] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/21/2022] [Revised: 08/10/2022] [Accepted: 08/15/2022] [Indexed: 11/25/2022]
Abstract
In this study, we have shown the interaction between opium poppy alkaloid noscapine-based ionic liquid [Pip-Nos]OTf and ct-DNA using UV-visible absorption spectroscopy, fluorescence spectroscopy, CD, and computational studies. The absorption spectra showed a hypochromic shift with no shift in the absorption maxima suggesting groove or electrostatic binding. Fluorescence spectra showed an enhancement in fluorescence emission suggesting that the probable mode of binding should be groove binding. Ethidium bromide (EB) competitive and Ionic strength study showed the absence of intercalative and electrostatic modes of interaction. Further, CD analysis of ct-DNA suggested a groove binding mode of interaction of [Pip-Nos]OTf with ct-DNA. [Pip-Nos]OTf displayed a strong binding with the target ct-DNA with a molecular docking score of -41.47 kJ/mol with all 3D coordinates and full conformation. Also, molecular binding contact analyses depicted the stable binding of drug and ct-DNA with potential hydrogen bonds and hydrophobic interactions. The structural superimposition dynamics analysis showed the stable binding of [Pip-Nos]OTf with the ct-DNA model through RMSD statistics. Moreover, the ligand interaction calculations revealed the involvement of large binding energy along with a high static number of molecular forces including the hydrogen bonds and hydrophobic interactions in their complexation. These significant results report the potency of [Pip-Nos]OTf and its important futuristic role in cancer therapeutics.
Collapse
Affiliation(s)
- Hitesh Sehrawat
- Drug Discovery & Development Laboratory, Department of Chemistry, University of Delhi, Delhi 110007, India.
| | - Neeraj Kumar
- Drug Discovery & Development Laboratory, Department of Chemistry, University of Delhi, Delhi 110007, India; Northwestern University, Feinberg School of Medicine, Department of Neurology, Chicago, IL 60611, USA
| | - Sagar Panchal
- Drug Discovery & Development Laboratory, Department of Chemistry, University of Delhi, Delhi 110007, India
| | - Loveneesh Kumar
- Drug Discovery & Development Laboratory, Department of Chemistry, University of Delhi, Delhi 110007, India
| | - Ramesh Chandra
- Drug Discovery & Development Laboratory, Department of Chemistry, University of Delhi, Delhi 110007, India; Dr. B. R. Ambedkar Center for Biomedical Research, University of Delhi, Delhi 110007, India; Institute of Nano Medical Sciences (INMS), University of Delhi, Delhi 110007, India.
| |
Collapse
|
14
|
Singh D, Kaur L, Rahman AJ, Singh P, Kumar Tiwari A, Ojha H. Binding and mechanistic studies of 5-HT7 specific benzothiazolone derivatives with Bovine Serum Albumin: Spectroscopic and In silico studies. J Mol Liq 2022. [DOI: 10.1016/j.molliq.2022.120143] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/31/2022]
|
15
|
Bodapati ATS, Sahoo BK, Reddy RS, Lavanya K, Madku SR. Deciphering the nature of binding of dexlansoprazole with DNA: Biophysical and docking approaches. Int J Biol Macromol 2022; 217:1027-1036. [PMID: 35907469 DOI: 10.1016/j.ijbiomac.2022.07.177] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2022] [Revised: 07/21/2022] [Accepted: 07/22/2022] [Indexed: 11/30/2022]
Abstract
Drugs, in general, exhibit their pharmacological activity in binding with intracellular targets. Numerous anticancer and antibacterial drugs target DNA as one of their primary intracellular targets. Dexlansoprazole (DLP) is a heterocyclic compound containing benzimidazole moiety and a proton pump inhibitor used to treat gastroesophageal reflux disease. The interaction of dexlansoprazole with calf thymus DNA (ct-DNA) has been studied using biophysical methods. The UV-Visible studies revealed a binding constant of 2.15 ± 0.3 × 104 M-1 which is close to the value of 2.44 ± 0.3 × 104 M-1 obtained from the fluorescence studies. Competitive displacement studies using the fluorescence spectroscopic method with ethidium bromide and Hoechst as DNA markers suggested the groove binding mode of DLP in ct-DNA. The groove binding mode of DLP in ct-DNA was complemented by the results of viscosity and DNA melting studies. Further studies on the effect of ionic strength and potassium iodide on DLP binding with ct-DNA supported the observed binding mode. Circular dichroism studies reflected no significant conformational variation in ct-DNA after the interaction. The binding mode obtained from the experimental studies was corroborated by the molecular docking studies that showed the position of DLP in the minor groove of ct-DNA along with the receptor interface restudies involved in the interaction.
Collapse
Affiliation(s)
- Anna Tanuja Safala Bodapati
- Chemistry Division, BS&H Department, BVRIT Hyderabad, College of Engineering for Women, Hyderabad 500090, India; Department of Chemistry, GITAM Deemed to be University, Hyderabad Campus 502329, India
| | - Bijaya Ketan Sahoo
- Department of Chemistry, GITAM Deemed to be University, Hyderabad Campus 502329, India.
| | - Ragaiahgari Srinivas Reddy
- Department of Chemistry, GITAM Deemed to be University, Hyderabad Campus 502329, India; Department of Chemistry, B V Raju Institute of Technology (BVRIT), Narsapur 502313, India
| | - Kandikonda Lavanya
- Department of Chemistry, GITAM Deemed to be University, Hyderabad Campus 502329, India; Department of Chemistry, Gokaraju Rangaraju Institute of Engineering and Technology, Hyderabad 500090, India
| | - Shravya Rao Madku
- Department of Chemistry, GITAM Deemed to be University, Hyderabad Campus 502329, India; Department of Chemistry, St. Francis College for Women, Hyderabad 500016, India
| |
Collapse
|
16
|
Tripathi M, Asatkar AK, Antony S, Dash MK, Roymahapatra G, Pande R, Sarkar A, Aldakheel FM, Binshaya AS, Alharthi NS, Alaofi AL, Alqahtani MS, Syed R. Copper(ii) complexes supported by modified azo-based ligands: Nucleic acid binding and molecular docking studies. OPEN CHEM 2022; 20:505-516. [DOI: 10.1515/chem-2022-0164] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/17/2024] Open
Abstract
Abstract
Two new copper(ii) complexes [CuL1] (1) and [CuL2] (2) derived from azo-based ligands 2-hydroxy-5-p-tolylazo-benzaldehyde (HL1) and 1-(2-hydroxy-5-p-tolylazo-phenyl)-ethan-one (HL2) were synthesized. These two ligands and their metal complexes were characterized by elemental analysis, nuclear magnetic resonance (1H and 13C), infrared, and UV/Vis spectroscopic techniques. Spectroscopy and other theoretical studies reveal the geometry of copper complexes, and their binding affinity towards nucleic acids are major groove binding.
Collapse
Affiliation(s)
- Mamta Tripathi
- School of Studies in Chemistry, Pt. Ravishankar Shukla University , Raipur , 492010, Chhattisgarh , India
| | - Ashish Kumar Asatkar
- Department of Chemistry, Government Gundadhur P. G. College , Kondagaon , 494226, Chhattisgarh , India
| | - Stalin Antony
- Department of Traditional Chinese Medicine, State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University , Hangzhou , 311300 , China
| | - Mrinal Kanti Dash
- Department of Applied Sciences, Haldia Institute of Technology , Haldia , 721657 , India
| | | | - Rama Pande
- School of Studies in Chemistry, Pt. Ravishankar Shukla University , Raipur , 492010, Chhattisgarh , India
| | - Avijit Sarkar
- Department of Chemistry, Bhairab Ganguly College , Belghoria , Kolkata, 700056 , India
| | - Fahad M. Aldakheel
- Department of Clinical Laboratory Sciences, College of Applied Medical Sciences, King Saud University , Riyadh , 11433 , Saudi Arabia
| | - Abdulkarim S. Binshaya
- Department of Medical Laboratory Sciences, College of Medical Sciences, Prince Sattam bin Abdulaziz University (PSAU) , Alkharz , Saudi Arabia
| | - Nahed S. Alharthi
- Department of Medical Laboratory Sciences, College of Applied Medical Sciences, Prince Sattam bin Abdulaziz University (PSAU) , Alkharj , Saudi Arabia
| | - Ahmed L. Alaofi
- Department of Pharmaceutics, College of Pharmacy, King Saud University , P.O Box. 2457 , Riyadh , 11451 , Kingdom of Saudi Arabia
| | - Mohammed S. Alqahtani
- Department of Pharmaceutics, College of Pharmacy, King Saud University , P.O Box. 2457 , Riyadh , 11451 , Kingdom of Saudi Arabia
| | - Rabbani Syed
- Department of Pharmaceutics, College of Pharmacy, King Saud University , P.O Box. 2457 , Riyadh , 11451 , Kingdom of Saudi Arabia
| |
Collapse
|
17
|
Mohebbi Jahromi Z, Asadi Z, Eigner V, Dusek M, Rastegari B. A new phenoxo-bridged dicopper Schiff base Complex: Synthesis, Crystal Structure, DNA/BSA Interaction, Cytotoxicity Assay and Catecholase Activity. Polyhedron 2022. [DOI: 10.1016/j.poly.2022.115891] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
|
18
|
Durga Priyadharshini R, Ponkarpagam S, Vennila KN, Elango KP. Spectroscopic and theoretical evidences for the surface binding of voglibose drug with DNA. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2022; 271:120888. [PMID: 35063822 DOI: 10.1016/j.saa.2022.120888] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/28/2021] [Revised: 01/06/2022] [Accepted: 01/09/2022] [Indexed: 06/14/2023]
Abstract
Binding of voglibose (VOG), an alpha glucosidase inhibitor, with CT-DNA has been investigated using various spectroscopic techniques including UV-Vis, fluorescence and circular dichroism (CD) coupled with relative viscosity. Isothermal titration calorimetric studies have been used to calculate the thermodynamic parameters such as ΔH (0.0188 cal/mol), ΔS (63.3 cal/mol/K) and ΔG (-18.8 kcal/mol), which reveal that the binding is a spontaneous process and hydrophobic and H-bonding interactions play major roles in the binding process. Effect of ionic strength confirms the existence of hydrophobic interaction between VOG and CT-DNA. Competitive displacement assays with ethidium bromide (EB) and Hoechst 33258 suggest that VOG possibly binds on the surface of CT-DNA. Viscosity measurements also disclose that the binding could be mainly surface binding. Corroborating the experimental observations, metadynamics molecular simulation studies confirm that VOG binding on the surface of the DNA molecule through hydrophobic interactions and direct and water molecule mediated H-bonding.
Collapse
Affiliation(s)
- R Durga Priyadharshini
- Department of Chemistry, Gandhigram Rural Institute - Deemed to be University, Gandhigram 624302, India
| | - S Ponkarpagam
- Department of Chemistry, Gandhigram Rural Institute - Deemed to be University, Gandhigram 624302, India
| | - K N Vennila
- Department of Chemistry, Gandhigram Rural Institute - Deemed to be University, Gandhigram 624302, India
| | - Kuppanagounder P Elango
- Department of Chemistry, Gandhigram Rural Institute - Deemed to be University, Gandhigram 624302, India.
| |
Collapse
|
19
|
Goswami S, Ghosh R, Prasanthan P, Kishore N. Mode of interaction of altretamine with calf thymus DNA: biophysical insights. J Biomol Struct Dyn 2022; 41:3728-3740. [PMID: 35343872 DOI: 10.1080/07391102.2022.2054472] [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: 10/18/2022]
Abstract
Insights into drug-DNA interactions have importance in medicinal chemistry as it has a major role in the evolution of new therapeutic drugs. Therefore, binding studies of small molecules with DNA are of significant interest. Spectroscopy, coupled with measurements of viscosity and molecular docking studies were employed to obtain mechanistic insights into the binding of altretamine with calf thymus DNA (CT-DNA). The UV-visible spectroscopic measurements study confirmed altretamine-CT-DNA complex formation with affinity constant ([15.68 ± 0.04] × 103 M-1), a value associated with groove binding phenomenon. The associated thermodynamic signatures suggest enthalpically driven interactions. The values of standard molar free energy change (ΔGmo) -(23.93 ± 0.23) kJ mol-1, enthalpy change (ΔvHHmo) -(50.84 ± 0.19) kJ mol-1 and entropy change (ΔSmo) -(90.29 ± 0.12) JK-1 mol-1 indicate the binding is thermodynamically favorable and an important role of the hydrogen bonds and Van der Waals interactions in the binding of altretamine with CT-DNA. Circular dichroism spectroscopy indicated insignificant conformational changes in the DNA backbone upon interaction with altretamine suggesting no distortion and/or unstacking of the base pairs in the DNA helix. UV-melting study suggested that the thermal stability of the DNA backbone is not affected by the binding of the drug. Competitive displacement assays with ethidium bromide, Hoechst-33258 and DAPI established the binding of altretamine with CT-DNA in the minor groove. The mode of binding was further confirmed by viscosity and molecular docking studies. Molecular docking further ascertained binding of altretamine in the minor groove of the CT-DNA, preferably with the A-T rich sequences.
Collapse
Affiliation(s)
- Sathi Goswami
- Department of Chemistry, Indian Institute of Technology Bombay, Maharashtra, India
| | - Ritutama Ghosh
- Department of Chemistry, Indian Institute of Technology Bombay, Maharashtra, India
| | - Pooja Prasanthan
- Department of Chemistry, Indian Institute of Technology Bombay, Maharashtra, India
| | - Nand Kishore
- Department of Chemistry, Indian Institute of Technology Bombay, Maharashtra, India
| |
Collapse
|
20
|
Synthesis, Characterization and Anticancer Efficacy Evaluation of Benzoxanthone Compounds toward Gastric Cancer SGC-7901. Molecules 2022; 27:molecules27061970. [PMID: 35335332 PMCID: PMC8949258 DOI: 10.3390/molecules27061970] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2022] [Revised: 03/08/2022] [Accepted: 03/14/2022] [Indexed: 02/04/2023] Open
Abstract
Three benzoxanthone derivatives were synthesized through a new photochemical strategy. The in vitro cytotoxic activity of these compounds was evaluated by 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide (MTT) assay, and their partition coefficients (logP) were measured by shake flask method. The pKa values of the compounds were detected by potentionmetric titration. The interaction of the compounds with calf thymus DNA (CT-DNA) was investigated by electronic absorption, luminescence spectra and viscosity. A molecular docking analysis was performed. The antitumor efficacy of the compounds was evaluated by cell apoptosis, cell cycle arrest, intracellular Ca2+ concentrations and reactive oxygen species (ROS) levels. The mitochondrial membrane potential was assayed using JC-1 (5,5′,6,6′-tetrachloro-1,1,3′,3′-tetraethyl-imidacarbocyanine iodide) as the fluorescence probe. The expression of Bcl-2 family protein, caspase 3 and poly ADP-ribose polymerase (PARP) was explored by western blot. The results showed that the compounds induced apoptosis through a ROS-mediated mitochondrial dysfunction pathway. This work provides an efficient approach to synthesize benzoxanthone derivatives, and is helpful for understanding the apoptotic mechanism.
Collapse
|
21
|
Influence of Acetylation on the Mechanism of Action of Antimicrobial Peptide L163. Int J Pept Res Ther 2022. [DOI: 10.1007/s10989-022-10387-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
|
22
|
Ameen F, Siddiqui S, Jahan I, Nayeem SM, Rehman SU, Tabish M. Studying the interaction of scopolamine with calf-thymus DNA: An in-vitro and in-silico approach and genotoxicity. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2022; 265:120391. [PMID: 34571375 DOI: 10.1016/j.saa.2021.120391] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/26/2021] [Revised: 09/03/2021] [Accepted: 09/07/2021] [Indexed: 06/13/2023]
Abstract
Scopolamine is used to treat various CNS disorder like urinary incontinence, motion sickness, spasmic movements. Despite its pharmaceutical properties, its interaction with DNA is not yet reported. In this article, the interaction between scopolamine and ct-DNA is reported using a combination of biophysical techniques. UV-visible and steady-state fluorescence spectroscopy were used to study interaction and complex formation. Competitive displacement assays and potassium iodide quenching confirmed the mode of binding between scopolamine and DNA. Structural changes induced in the ct-DNA in the presence of scopolamine were evaluated by CD spectroscopy. The plasmid nicking and NBT assay confirmed the genotoxic effect of scopolamine. In-silico study by molecular docking and molecular dynamics simulation revealed the mode of interaction, major stabilizing forces as well as the nucleotide sequences to which the scopolamine binds.
Collapse
Affiliation(s)
- Faisal Ameen
- Department of Biochemistry, Faculty of Life Sciences, A.M. University, Aligarh, U.P. 202002, India
| | - Sharmin Siddiqui
- Department of Biochemistry, Faculty of Life Sciences, A.M. University, Aligarh, U.P. 202002, India
| | - Ishrat Jahan
- Department of Chemistry, Faculty of Science, A.M. University, Aligarh, U.P. 202002, India
| | - Shahid M Nayeem
- Department of Chemistry, Faculty of Science, A.M. University, Aligarh, U.P. 202002, India
| | - Sayeed Ur Rehman
- Department of Biochemistry, School of Chemical and Life Sciences, Jamia Hamdard, New Delhi 110062, India
| | - Mohammad Tabish
- Department of Biochemistry, Faculty of Life Sciences, A.M. University, Aligarh, U.P. 202002, India.
| |
Collapse
|
23
|
Marjani N, Dareini M, Asadzade-Lotfabad M, Pejhan M, Mokaberi P, Amiri-Tehranizadeh Z, Saberi MR, Chamani J. Evaluation of the binding effect and cytotoxicity assay of 2-Ethyl-5-(4-methylphenyl) pyramido pyrazole ophthalazine trione on calf thymus DNA: spectroscopic, calorimetric, and molecular dynamics approaches. LUMINESCENCE 2021; 37:310-322. [PMID: 34862709 DOI: 10.1002/bio.4173] [Citation(s) in RCA: 64] [Impact Index Per Article: 21.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2021] [Revised: 10/14/2021] [Accepted: 11/17/2021] [Indexed: 01/04/2023]
Abstract
With advances in new drug therapies, it is essential to understand the interactions between drugs and target molecules. In this study, we applied multiple spectroscopic techniques including absorbance, fluorescence, circular dichroism spectroscopy, viscosity, thermal melting, calorimetric, and molecular dynamics (MD) simulation to study the interaction between 2-Ethyl-5-(4-methylphenyl) pyramido pyrazole ophthalazine trione (PPF) and calf thymus DNA (ct DNA) in the absence or presence of histone H1. PPF exhibits a high binding affinity towards ct DNA in binary and ternary systems. In addition, the result for the binding constant was observed within the range 104 M-1 achieved through fluorescence quenching data, while the values for enthalpy and entropy changes for ct DNA-PPF and (ct DNA-H1) PPF complexes were measured to be -72.54 kJ.mol-1 , -161.14 J.mol-1 K-1 , -85.34 kJ.mol-1 , and -19.023 J.mol-1 K-1 , respectively. Furthermore, in accordance with circular dichroism spectra, the inducement of ct DNA structural changes was observed during binding of PPF and H1 in binary and ternary system forms. The essential roles of hydrogen bonding and van der Waals forces throughout the interaction were suggested using thermodynamic parameters. According to the obtained data, the interaction mode of ct DNA-PPF and (ct DNA-H1) PPF complexes was intercalation binding. Suggested by the MD simulation study, the ct DNA-H1 complex caused a reduction in the stability of the DNA structure in the presence or absence of ligand, which demonstrated that PPF as an intercalating agent can further distort the structure. The information achieved from this study will be very helpful in understanding the effects of PPF on the conformational state of ct DNA in the absence or presence of the H1 molecule, which seems to be quite significant for clarifying the mechanisms of action and its pharmacokinetics.
Collapse
Affiliation(s)
- Narges Marjani
- Department of Biology, Faculty of Sciences, Mashhad Branch, Islamic Azad University, Mashhad, Iran
| | - Maryam Dareini
- Department of Biology, Faculty of Sciences, Mashhad Branch, Islamic Azad University, Mashhad, Iran
| | - Maryam Asadzade-Lotfabad
- Department of Biology, Faculty of Sciences, Mashhad Branch, Islamic Azad University, Mashhad, Iran
| | - Mahtab Pejhan
- Department of Biology, Faculty of Sciences, Mashhad Branch, Islamic Azad University, Mashhad, Iran
| | - Parisa Mokaberi
- Department of Biology, Faculty of Sciences, Mashhad Branch, Islamic Azad University, Mashhad, Iran
| | - Zeinab Amiri-Tehranizadeh
- Department of Medical Chemistry, School of Pharmacy, Mashhad University of Medical Sciences, Mashhad, Iran
| | - Mohammad Reza Saberi
- Department of Medical Chemistry, School of Pharmacy, Mashhad University of Medical Sciences, Mashhad, Iran
| | - Jamshidkhan Chamani
- Department of Biology, Faculty of Sciences, Mashhad Branch, Islamic Azad University, Mashhad, Iran
| |
Collapse
|
24
|
Varma RR, Vaidya FU, Pathak C, Dhaduk MP, Dabhi RA, Bhatt BS, Patel MN. Synthesis, spectroscopic characterization, computational and biological evaluation of organometallic Re(I) complexes with 5-(2-butyl-5-chloro-1H-imidazol-4-yl)-1,3-diaryl- 4,5-dihydro-1H-pyrazole. INORG CHEM COMMUN 2021. [DOI: 10.1016/j.inoche.2021.109005] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
|
25
|
Zhao PF, Liu ZQ. Attaching a Dipeptide to Fullerene as an Antioxidant Hybrid against DNA Oxidation. Chem Res Toxicol 2021; 34:2366-2374. [PMID: 34672520 DOI: 10.1021/acs.chemrestox.1c00283] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
Emerging evidence has revealed that oxidative damages of DNA correlate with the pathogenesis of some diseases, and numerous investigations have also suggested that supplementation of antioxidants is beneficial for keeping health by rectifying in vivo redox status. Here, we construct antioxidative dipeptides with the Ugi four-component reaction (comprising p-aminobenzyl alcohol, benzaldehyde, or vanillin, a series of antioxidative carboxylic acids and isocyanides as reagents) and then attempt to attach the dipeptides to [60]fullerene by the Bingel reaction. However, this endeavor does not lead to the amelioration of the radical-scavenging property because abilities of fullerenyl dipeptides to trap 2,2'-diphenyl-1-picrylhydrazyl and galvinoxyl radicals are still dependent upon the phenolic hydroxyl group in the dipeptide scaffold rather than upon the fullerenyl group. Alternatively, when the obtained fullerenyl dipeptides are evaluated in a peroxyl radical-induced oxidation of DNA, it is found that introducing a fullerene moiety into dipeptide enables antioxidative effect to be enhanced 20-30% because the fullerene moiety facilitates the corresponding dipeptide to intercalate with DNA strands, and thus, to increase the antioxidative efficacy. Our results suggest that connecting an antioxidative skeleton with the hydrophobic fullerene moiety might lead to a series of novel antioxidant hybrids applied for the inhibition of DNA oxidation.
Collapse
Affiliation(s)
- Peng-Fei Zhao
- Department of Organic Chemistry, College of Chemistry, Jilin University, Changchun 130021, People's Republic of China
| | - Zai-Qun Liu
- Department of Organic Chemistry, College of Chemistry, Jilin University, Changchun 130021, People's Republic of China
| |
Collapse
|
26
|
Białobrzeska W, Głowacki MJ, Janik M, Ficek M, Pyrchla K, Sawczak M, Bogdanowicz R, Malinowska N, Żołędowska S, Nidzworski D. Quantitative fluorescent determination of DNA – Ochratoxin a interactions supported by nitrogen-vacancy rich nanodiamonds. J Mol Liq 2021. [DOI: 10.1016/j.molliq.2021.117338] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
|
27
|
DNA interaction, anticancer, antibacterial, ROS and lipid peroxidation studies of quinoxaline based organometallic Re(I) carbonyls. J Mol Struct 2021. [DOI: 10.1016/j.molstruc.2021.130529] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
|
28
|
Cui SM, Liang HY, Li T, He KK, Zheng YM, Tang M, Ke CR, Song LY. Interaction of magnolia bark extracts with Staphylococcus aureus DNA and evaluation of the stability of their antibacterial activities. Arch Microbiol 2021; 203:5215-5224. [PMID: 34351458 DOI: 10.1007/s00203-021-02501-5] [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: 02/22/2020] [Revised: 05/28/2021] [Accepted: 06/21/2021] [Indexed: 10/20/2022]
Abstract
Magnolia bark is an edible traditional Chinese medicine that has antibacterial activity against Staphylococcus aureus. In the present study, interactions between S. aureus DNA and raw magnolia bark (RMB) and ginger mix-fried magnolia bark (GMB) aqueous extracts were determined via spectroscopic methods. Fluorescence spectroscopy and Stern-Volmer constants showed that S. aureus DNA quenched the fluorescence of the extracts by static quenching. UV-Vis spectroscopy and iodide quenching experiments indicated that the interactions between S. aureus DNA and the fluorescent substances might involve groove binding or electrostatic interactions. In 4', 6-diamidino-2-phenylindole competitive assays, the fluorescence intensity at decreased as the extract amount was increased. This indicates that groove binding is responsible for the fluorescence quenching. The antibacterial activity of GMB aqueous extract treated under light, cold, heat and cycling hot-cold conditions decreased by 13.99, 9.31, 10.89 and 14.40%, respectively, whereas that of RMB aqueous extract treated under the same conditions decreased by 8.91, 14.99, 14.99 and 13.70%, respectively. The results indicate that S. aureus DNA quenches the fluorescence of GMB and RMB aqueous extracts by grooving interactions. Additionally, the antibacterial activities of GMB and RMB extracts are sensitive to light and temperature, respectively.
Collapse
Affiliation(s)
- Shu-Mei Cui
- Beijing Key Laboratory of Plant Resources Research and Development, College of Chemistry and Materials Engineering, Beijing Technology and Business University, Beijing, China.,College of Life Sciences, Fujian Normal University, Fuzhou, 350117, China
| | - Hai-Yun Liang
- Beijing Key Laboratory of Plant Resources Research and Development, College of Chemistry and Materials Engineering, Beijing Technology and Business University, Beijing, China
| | - Ting Li
- Beijing Key Laboratory of Plant Resources Research and Development, College of Chemistry and Materials Engineering, Beijing Technology and Business University, Beijing, China
| | - Ke-Ke He
- Beijing Key Laboratory of Plant Resources Research and Development, College of Chemistry and Materials Engineering, Beijing Technology and Business University, Beijing, China
| | - Yu-Mei Zheng
- Beijing Key Laboratory of Plant Resources Research and Development, College of Chemistry and Materials Engineering, Beijing Technology and Business University, Beijing, China
| | - Meng Tang
- Beijing Key Laboratory of Plant Resources Research and Development, College of Chemistry and Materials Engineering, Beijing Technology and Business University, Beijing, China
| | - Chong-Rong Ke
- College of Life Sciences, Fujian Normal University, Fuzhou, 350117, China
| | - Li-Ya Song
- Beijing Key Laboratory of Plant Resources Research and Development, College of Chemistry and Materials Engineering, Beijing Technology and Business University, Beijing, China.
| |
Collapse
|
29
|
Fu L, Liu G, Zhao D, Yuan L, Lu K. Interaction of two peptide drugs with biomacromolecules analyzed by molecular docking and multi-spectroscopic methods. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2021; 255:119673. [PMID: 33751958 DOI: 10.1016/j.saa.2021.119673] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/06/2020] [Revised: 02/08/2021] [Accepted: 02/28/2021] [Indexed: 06/12/2023]
Abstract
Peptide drugs, which are mainly used for the treatment of AIDS, myeloma, and breast cancer, have evolved rapidly owing to their high efficacy and low side effects. The interaction mechanisms of two peptide drugs with two biological macromolecules (protein and DNA), which are of great significance in disease prevention and drug design, were investigated using molecular docking, fluorescence spectroscopy, circular dichroism (CD) spectroscopy, UV-visible spectroscopy and viscosity measurements. The interaction between a series of common drugs and ovalbumin (OVA) was simulated by molecular docking, and two peptide drugs with the highest energy values, namely atazanavir and carfilzomib, were selected; the binding energy values of these drugs with OVA were -59.20 and -55.93 kcal/mol, respectively. The Kb values of the interaction of the two drugs with OVA/DNA were in the range of 104-107 M-1, and the binding affinity of the drugs was stronger with OVA than with DNA. Hydrogen bonds and van der Waals forces were very important for the binding between drugs and OVA through molecular docking studies, and it was consistent with experimental results (ΔH < 0, ΔH < 0). The synchronous fluorescence spectrum showed that the interaction caused a change to the original structure of OVA, and atazanavir had a greater effect on OVA than carfilzomib. CD spectrum analysis also demonstrated that the conformation of OVA changed slightly. The interaction between atazanavir and DNA was mainly driven by hydrophobic forces (ΔH > 0 and ΔH > 0), whereas the major interaction forces involved in the binding of carfilzomib with DNA were hydrogen bonds and van der Waals forces. DNA melting studies, UV-visible spectroscopy, CD spectroscopy and viscosity measurements established that the interaction between the drugs and DNA was groove binding.
Collapse
Affiliation(s)
- Linna Fu
- School of Chemistry and Chemical Engineering, Henan University of Technology, Zhengzhou 450001, China; School of Chemical Engineering and Food Science, Zhengzhou University of Technology, Zhengzhou 450044, China
| | - Guangbin Liu
- Chemical College, Zhengzhou University, Zhengzhou 450001, China
| | - Dongxin Zhao
- School of Chemistry and Chemical Engineering, Henan University of Technology, Zhengzhou 450001, China
| | - Libo Yuan
- School of Chemistry and Chemical Engineering, Henan University of Technology, Zhengzhou 450001, China
| | - Kui Lu
- School of Chemical Engineering and Food Science, Zhengzhou University of Technology, Zhengzhou 450044, China.
| |
Collapse
|
30
|
Magdy G, Belal F, Abdel Hakiem AF, Abdel-Megied AM. Salmon sperm DNA binding study to cabozantinib, a tyrosine kinase inhibitor: Multi-spectroscopic and molecular docking approaches. Int J Biol Macromol 2021; 182:1852-1862. [PMID: 34062156 DOI: 10.1016/j.ijbiomac.2021.05.164] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2021] [Revised: 05/23/2021] [Accepted: 05/24/2021] [Indexed: 11/16/2022]
Abstract
In the current work, the binding interaction of cabozantinib with salmon sperm DNA (SS-DNA) was studied under simulated physiological conditions (pH 7.4) using fluorescence emission spectroscopy, UV-Vis absorption spectroscopy, viscosity measurement, ionic strength measurement, FT-IR spectroscopy, and molecular modeling methods. The obtained experimental data demonstrated an apparent binding interaction of cabozantinib with SS-DNA. The binding constant (Kb) of cabozantinib with SS-DNA evaluated from the Benesi-Hildebrand plot was equal to 5.79 × 105 at 298 K. The entropy and enthalpy changes (∆S0 and ∆H0) in the binding interaction of SS-DNA with cabozantinib were 44.13 J mol-1 K-1 and -19.72 KJ mol-1, respectively, demonstrating that the basic binding interaction forces are hydrophobic and hydrogen bonding interactions. Results from UV-Vis absorption spectroscopy, competitive binding interaction with rhodamine B or ethidium bromide, and viscosity measurements revealed that cabozantinib binds to SS-DNA via minor groove binding. The molecular docking results revealed that cabozantinib fits into the AT-rich region of the B-DNA minor groove and the binding site of cabozantinib was 4 base pairs long. Moreover, cabozantinib has eight active torsions, implying a high degree of flexibility in its structure, which played a significant role in the formation of a stable cabozantinib-DNA complex.
Collapse
Affiliation(s)
- Galal Magdy
- Pharmaceutical Analytical Chemistry Department, Faculty of Pharmacy, Kafrelsheikh University, Kafrelsheikh, P.O. Box 33511, Egypt.
| | - Fathalla Belal
- Pharmaceutical Analytical Chemistry Department, Faculty of Pharmacy, Mansoura University, Mansoura, P.O. Box 35516, Egypt
| | - Ahmed Faried Abdel Hakiem
- Pharmaceutical Analytical Chemistry Department, Faculty of Pharmacy, Kafrelsheikh University, Kafrelsheikh, P.O. Box 33511, Egypt
| | - Ahmed M Abdel-Megied
- Pharmaceutical Analytical Chemistry Department, Faculty of Pharmacy, Kafrelsheikh University, Kafrelsheikh, P.O. Box 33511, Egypt; Department of Pharmaceutical Sciences, University of Maryland School of Pharmacy, 20 N. Pine Street, Baltimore, MD 21201, USA
| |
Collapse
|
31
|
Tripathi M, Syed R, Stalin A, Malik A, Pande R, Asatkar AK. In vitro investigation of biophysical interactions between Ag(I) complexes of bis(methyl)(thia/selena)salen and ct-DNA via multi-spectroscopic, physicochemical and molecular docking methods along with cytotoxicity study. LUMINESCENCE 2021; 36:1277-1284. [PMID: 33834603 DOI: 10.1002/bio.4054] [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: 07/27/2020] [Revised: 03/11/2021] [Accepted: 04/06/2021] [Indexed: 11/10/2022]
Abstract
Four silver(I) (Ag(I)) complexes: 1.PF6 , 2.PF6 , 1.ClO4 and 2.ClO4 of bis(methyl)thia salen (1) and bis (methyl)selena salen (2) with two different counter anions (PF6 - and ClO4 - ) have been investigated for DNA binding properties. In vitro interactional association between the Ag(I) complexes and ct-DNA has been examined by performing spectroscopic titrations on absorption spectrophotometer and fluorescence spectrophotometer. A competitive binding study has also been done using a fluorescence spectrophotometer with ethidium bromide as a classical intercalator. The spectroscopic methods revealed a major groove. Viscometry and agarose gel electrophoresis experiments have also been performed as physicochemical methods to confirm the binding of complex molecules with DNA. Molecular docking analysis has been executed to obtain the theoretical insight into the mode of binding. The docking study demonstrated the major groove binding of all four complexes to the DNA with electrostatic metal-phosphate interactions (between the metal and the backbone of DNA) and hydrophobic interactions. Cytotoxicity of the complexes has been studied on the Human Fibroblast foreskin (HFF) cell line. The cytotoxicity results showed positive gesture for moving ahead to the next level of screening; the values were above 10 μM which are appreciated for the normal cell lines.
Collapse
Affiliation(s)
- Mamta Tripathi
- School of Studies in Chemistry, Pt. Ravishankar Shukla University, Raipur, Chhattisgarh, 492010, India
| | - Rabbani Syed
- Nanobiotechnology Unit, Department of Pharmaceutics, College of Pharmacy, King Saud University, Riyadh, Saudi Arabia
| | - Antony Stalin
- State Key Laboratory of Subtropical Silviculture, Department of Traditional Chinese Medicine, Zhejiang A&F University, Hangzhou, China
| | - Abdul Malik
- Nanobiotechnology Unit, Department of Pharmaceutics, College of Pharmacy, King Saud University, Riyadh, Saudi Arabia
| | - Rama Pande
- School of Studies in Chemistry, Pt. Ravishankar Shukla University, Raipur, Chhattisgarh, 492010, India
| | - Ashish K Asatkar
- Department of Chemistry, Government Gundadhur P.G. College, Kondagaon, Chhattisgarh, India
| |
Collapse
|
32
|
Savić ND, Petković BB, Vojnovic S, Mojicevic M, Wadepohl H, Olaifa K, Marsili E, Nikodinovic-Runic J, Djuran MI, Glišić BĐ. Dinuclear silver(i) complexes with a pyridine-based macrocyclic type of ligand as antimicrobial agents against clinically relevant species: the influence of the counteranion on the structure diversification of the complexes. Dalton Trans 2021; 49:10880-10894. [PMID: 32716429 DOI: 10.1039/d0dt01272f] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Abstract
New dinuclear silver(i) complexes with N,N',N'',N'''-tetrakis(2-pyridylmethyl)-1,4,8,11-tetraazacyclotetradecane (tpmc), [Ag2(NO3)(tpmc)]NO3·1.7H2O (1), [Ag2(CF3SO3)2(tpmc)] (2), and [Ag2(tpmc)](BF4)2 (3) were synthesized and characterized by NMR (1H and 13C), IR and UV-Vis spectroscopy, cyclic voltammetry and molar conductivity measurements. The molecular structures of the complexes were determined by single-crystal X-ray diffraction analysis. The spectroscopic and crystallographic data showed that the structure of the complexes strongly depends on the nature of the counteranion of silver(i) salt used for their synthesis. The antimicrobial activity of complexes 1-3 was examined against Gram-positive and Gram-negative bacteria and different species of unicellular fungus Candida spp. The ability of these complexes to inhibit the formation of Candida biofilms and to eradicate the already formed biofilms was tested in the standard microtiter plate-based assay. In addition, a bioelectrochemical testing of the antimicrobial activity of complex 1 against early biofilm was also performed. The obtained results indicated that complexes 1-3 showed increased activity toward Gram-negative bacteria and Candida spp. and could inhibit the formation of biofilms. In most cases, these complexes had positive selectivity indices and showed similar or even better activity with respect to the clinically used silver(i) sulfadiazine (AgSD). The values of the binding constants for complexes 1-3 to bovine serum albumin (BSA) were found to be high enough to indicate their binding to this biomolecule, but not so high as to prevent their release upon arrival at the target site. Moreover, the positive values of partition coefficients for these complexes indicated their ability to be transported through the cell membrane. Once inside the cell, complexes 1-3 could induce the formation of the reactive oxygen species (ROS) in C. albicans cells and/or interact with DNA. Taken together, silver(i) complexes with the tpmc ligand could be considered as novel antimicrobial compounds with favourable pharmacological properties, being safer than AgSD.
Collapse
Affiliation(s)
- Nada D Savić
- University of Kragujevac, Institute for Information Technologies Kragujevac, Department of Science, Jovana Cvijića bb, 34000 Kragujevac, Serbia.
| | - Branka B Petković
- University of Priština-Kosovska Mitrovica, Faculty of Sciences, Lole Ribara 29, 38220 Kosovska Mitrovica, Serbia
| | - Sandra Vojnovic
- Institute of Molecular Genetics and Genetic Engineering, University of Belgrade, Vojvode Stepe 444a, 11042 Belgrade, Serbia
| | - Marija Mojicevic
- Institute of Molecular Genetics and Genetic Engineering, University of Belgrade, Vojvode Stepe 444a, 11042 Belgrade, Serbia
| | - Hubert Wadepohl
- Anorganisch-Chemisches Institut, University of Heidelberg, Im Neuenheimer Feld 270, 69120 Heidelberg, Germany
| | - Kayode Olaifa
- Department of Chemical and Materials Engineering, Nazarbayev University, 53 Kabanbay Batyr Avenue, Nur-Sultan 010000, Kazakhstan
| | - Enrico Marsili
- Department of Chemical and Materials Engineering, Nazarbayev University, 53 Kabanbay Batyr Avenue, Nur-Sultan 010000, Kazakhstan
| | - Jasmina Nikodinovic-Runic
- Institute of Molecular Genetics and Genetic Engineering, University of Belgrade, Vojvode Stepe 444a, 11042 Belgrade, Serbia
| | - Miloš I Djuran
- Serbian Academy of Sciences and Arts, Knez Mihailova 35, 11000 Belgrade, Serbia
| | - Biljana Đ Glišić
- University of Kragujevac, Faculty of Science, Department of Chemistry, R. Domanovića 12, 34000 Kragujevac, Serbia.
| |
Collapse
|
33
|
Sharma M, Pal U, Kumari M, Bagchi D, Rani S, Mukherjee D, Bera A, Pal SK, Saha Dasgupta T, Mozumdar S. Effect of solvent on the photophysical properties of isoxazole derivative of curcumin: A combined spectroscopic and theoretical study. J Photochem Photobiol A Chem 2021. [DOI: 10.1016/j.jphotochem.2021.113164] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
|
34
|
Ašanin DP, Skaro Bogojevic S, Perdih F, Andrejević TP, Milivojevic D, Aleksic I, Nikodinovic-Runic J, Glišić BĐ, Turel I, Djuran MI. Structural Characterization, Antimicrobial Activity and BSA/DNA Binding Affinity of New Silver(I) Complexes with Thianthrene and 1,8-Naphthyridine. Molecules 2021; 26:1871. [PMID: 33810316 PMCID: PMC8037121 DOI: 10.3390/molecules26071871] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2021] [Revised: 03/23/2021] [Accepted: 03/23/2021] [Indexed: 11/16/2022] Open
Abstract
Three new silver(I) complexes [Ag(NO3)(tia)(H2O)]n (Ag1), [Ag(CF3SO3)(1,8-naph)]n (Ag2) and [Ag2(1,8-naph)2(H2O)1.2](PF6)2 (Ag3), where tia is thianthrene and 1,8-naph is 1,8-naphthyridine, were synthesized and structurally characterized by different spectroscopic and electrochemical methods and their crystal structures were determined by single-crystal X-ray diffraction analysis. Their antimicrobial potential was evaluated against four bacterial and three Candida species, and the obtained results revealed that these complexes showed significant activity toward the Gram-positive Staphylococcus aureus, Gram-negative Pseudomonas aeruginosa and the investigated Candida species with minimal inhibitory concentration (MIC) values in the range 1.56-7.81 μg/mL. On the other hand, tia and 1,8-naph ligands were not active against the investigated strains, suggesting that their complexation with Ag(I) ion results in the formation of antimicrobial compounds. Moreover, low toxicity of the complexes was detected by in vivo model Caenorhabditis elegans. The interaction of the complexes with calf thymus DNA (ct-DNA) and bovine serum albumin (BSA) was studied to evaluate their binding affinity towards these biomolecules for possible insights into the mode of antimicrobial activity. The binding affinity of Ag1-3 to BSA was higher than that for DNA, indicating that proteins could be more favorable binding sites for these complexes in comparison to the nucleic acids.
Collapse
Affiliation(s)
- Darko P. Ašanin
- Department of Science, Institute for Information Technologies Kragujevac, University of Kragujevac, Jovana Cvijića bb, 34000 Kragujevac, Serbia;
| | - Sanja Skaro Bogojevic
- Institute of Molecular Genetics and Genetic Engineering, University of Belgrade, Vojvode Stepe 444a, 11042 Belgrade, Serbia; (S.S.B.); (D.M.); (I.A.)
| | - Franc Perdih
- Department of Chemistry and Biochemistry, Faculty of Chemistry and Chemical Technology, University of Ljubljana, Večna pot 113, SI-1000 Ljubljana, Slovenia;
| | - Tina P. Andrejević
- Department of Chemistry, Faculty of Science, University of Kragujevac, R. Domanovića 12, 34000 Kragujevac, Serbia;
| | - Dusan Milivojevic
- Institute of Molecular Genetics and Genetic Engineering, University of Belgrade, Vojvode Stepe 444a, 11042 Belgrade, Serbia; (S.S.B.); (D.M.); (I.A.)
| | - Ivana Aleksic
- Institute of Molecular Genetics and Genetic Engineering, University of Belgrade, Vojvode Stepe 444a, 11042 Belgrade, Serbia; (S.S.B.); (D.M.); (I.A.)
| | - Jasmina Nikodinovic-Runic
- Institute of Molecular Genetics and Genetic Engineering, University of Belgrade, Vojvode Stepe 444a, 11042 Belgrade, Serbia; (S.S.B.); (D.M.); (I.A.)
| | - Biljana Đ. Glišić
- Department of Chemistry, Faculty of Science, University of Kragujevac, R. Domanovića 12, 34000 Kragujevac, Serbia;
| | - Iztok Turel
- Department of Chemistry and Biochemistry, Faculty of Chemistry and Chemical Technology, University of Ljubljana, Večna pot 113, SI-1000 Ljubljana, Slovenia;
| | - Miloš I. Djuran
- Serbian Academy of Sciences and Arts, Knez Mihailova 35, 11000 Belgrade, Serbia
| |
Collapse
|
35
|
Maurya N, Patel R. Comparative binding analysis of noscapine and piperine with tRNA: A structural perturbation and energetic study. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2021; 247:119089. [PMID: 33126137 DOI: 10.1016/j.saa.2020.119089] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/06/2020] [Revised: 10/05/2020] [Accepted: 10/10/2020] [Indexed: 06/11/2023]
Abstract
In this study, we have exploring the binding mechanisms of the two anticancer alkaloid noscapine (NOS) and piperine (PIP) with tRNA using different spectroscopy and computational method. Absorbance and emission spectra revealed that both the drugs show strong binding with tRNA, where NOS intercalate between the base pairs of tRNA and PIP binds in the groove of tRNA. Competitive binding study and steady state anisotropy further confirms the intercalative mode of binding between NOS and tRNA and groove binding in PIP-tRNA complex. The observed thermodynamic parameters suggested that NOS-tRNA complex formation is endothermic and entropy driven, however it was exothermic, and enthalpy driven in case of PIP-tRNA complex. CD and time resolved fluorescence studies show the structural perturbations and conformational change in tRNA structure with NOS as well as PIP. Molecular docking studies are comparable with experimental results and further confirmed that the hydrophobic interactions involved in the NOS-tRNA binding, whereas hydrogen binding and van der Waals interactions play important role in the PIP-tRNA complex formation. This study can be useful to understand the potential binding and resultant tRNA damage by alkaloids and deigned new target specific anticancer drug.
Collapse
Affiliation(s)
- Neha Maurya
- Biophysical Chemistry Laboratory, Centre for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia, New Delhi 110025, India
| | - Rajan Patel
- Biophysical Chemistry Laboratory, Centre for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia, New Delhi 110025, India.
| |
Collapse
|
36
|
Rodrigues FC, Kumar NA, Thakur G. The potency of heterocyclic curcumin analogues: An evidence-based review. Pharmacol Res 2021; 166:105489. [PMID: 33588007 DOI: 10.1016/j.phrs.2021.105489] [Citation(s) in RCA: 22] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 10/30/2020] [Revised: 02/07/2021] [Accepted: 02/09/2021] [Indexed: 12/29/2022]
Abstract
Curcumin, a potent phytochemical, has been a significant lead compound and has been extensively investigated for its multiple bioactivities. Owing to its natural origin, non-toxic, safe, and pleiotropic behavior, it has been extensively explored. However, several limitations such as its poor stability, bioavailability, and fast metabolism prove to be a constraint to achieve its full therapeutic potential. Many approaches have been adopted to improve its profile, amongst which, structural modifications have indicated promising results. Its symmetric structure and simple chemistry have prompted organic and medicinal chemists to manipulate its arrangement and study its implications on the corresponding activity. One such recurring and favorable modification is at the diketo moiety with the aim to achieve isoxazole and pyrazole analogues of curcumin. A modification at this site is not only simple to achieve, but also has indicated a superior activity consistently. This review is a comprehensive and wide-ranged report of the different methods adopted to achieve several cyclized curcumin analogues along with the improvement in the efficacy of the corresponding activities observed.
Collapse
Affiliation(s)
- Fiona C Rodrigues
- Department of Biomedical Engineering, Manipal Institute of Technology, Manipal Academy of Higher Education, Manipal 576 104, India
| | - Nv Anil Kumar
- Department of Chemistry, Manipal Institute of Technology, Manipal Academy of Higher Education, Manipal 576 104, India
| | - Goutam Thakur
- Department of Biomedical Engineering, Manipal Institute of Technology, Manipal Academy of Higher Education, Manipal 576 104, India.
| |
Collapse
|
37
|
Andrejević TP, Aleksic I, Počkaj M, Kljun J, Milivojevic D, Stevanović NL, Nikodinovic-Runic J, Turel I, Djuran MI, Glišić BĐ. Tailoring copper(ii) complexes with pyridine-4,5-dicarboxylate esters for anti-Candida activity. Dalton Trans 2021; 50:2627-2638. [PMID: 33523054 DOI: 10.1039/d0dt04061d] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
Five novel copper(ii) complexes with pyridine-4,5-dicarboxylate esters as ligands, [Cu(NO3)(py-2tz)(H2O)3]NO3 (1), [Cu(NO3)2(py-2metz)(H2O)] (2), [Cu(NO3)2(py-2py)(H2O)]·H2O (3), [CuCl2(py-2tz)]2 (4) and [CuCl2(py-2metz)]n (5) (py-2tz is dimethyl 2-(thiazol-2-yl)pyridine-4,5-dicarboxylate, py-2metz is dimethyl 2-(4-methylthiazol-2-yl)pyridine-4,5-dicarboxylate and py-2py is dimethyl 2,2'-bipyridine-4,5-dicarboxylate), were synthesized and structurally characterized by different spectroscopic and electrochemical methods. The structure of these complexes was determined by single-crystal X-ray diffraction analysis, confirming the bidentate coordination mode of the corresponding pyridine-4,5-dicarboxylate ester to the Cu(ii) ion through the nitrogen atoms. The antimicrobial potential of copper(ii) complexes 1-5 was assessed against two bacterial and two Candida species. These complexes showed better growth inhibiting activity against Candida spp. with respect to the tested bacterial species, also being moderately toxic towards normal human lung fibroblast cells (MRC-5). Complexes 1 and 4 showed the greatest ability to inhibit the filamentation of C. albicans, which is an important process during fungal infection, and these two complexes efficiently inhibited the biofilm formation of C. albicans at subinhibitory concentrations. Complex 4 also successfully prevented the adhesion of C. albicans in an in vitro epithelial cell model. The mechanism of the antifungal activity of copper(ii) complexes 1-5 was studied through their interaction with ct-DNA, as one of the possible target biomolecules, by fluorescence spectroscopy and gel electrophoresis. Finally, the ability of these complexes to bind to bovine serum albumin (BSA) was studied by fluorescence emission spectroscopy.
Collapse
Affiliation(s)
- Tina P Andrejević
- University of Kragujevac, Faculty of Science, Department of Chemistry, R. Domanovića 12, 34000 Kragujevac, Serbia.
| | | | | | | | | | | | | | | | | | | |
Collapse
|
38
|
Sharma D, Singh A, Pathak M, Kaur L, Kumar V, Roy BG, Ojha H. DNA binding and antiradical potential of ethyl pyruvate: Key to the DNA radioprotection. Chem Biol Interact 2020; 332:109313. [PMID: 33171137 DOI: 10.1016/j.cbi.2020.109313] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2020] [Revised: 10/23/2020] [Accepted: 11/04/2020] [Indexed: 02/07/2023]
Abstract
DNA is the store house of all necessary hereditary information for growth of cells and tissues. Physiological functionality of DNA depends on its 3D helical structure and any distortion in a structure may lead to mutation and genomic instability that may translate into disease like cancer. In order to prevent DNA damage, an exogenous compound is required that can either scavenge the excess free radicals or enhance the structural integrity of DNA through binding. In the present study, the binding mechanism of ethyl pyruvate (EP) with DNA models using different spectroscopic techniques was investigated for their structural integrity. Besides, 2, 2-diphenyl-1-picrylhydrazyl (DPPH) and ferric reducing antioxidant power (FRAP) assays were performed to determine the antioxidant scavenging of EP. Plasmid DNA relaxation assay was performed to assess the radioprotection efficacy of EP in the plasmid DNA. Circular dichroism (CD) and UV-Vis absorbance spectroscopic data confirmed the conformation change in ctDNA upon binding with EP. The molecular docking visualized that EP stacks between the DNA bases with a glide score of -2.117 kcalmol while EP binds in the minor groove region of DNA with the glide score of -1.414 kcalmol . DPPH and FRAP data confirmed that EP scavenges significantly radicals at higher concentrations. In vitro radioprotection study in plasmid DNA pBR322 showed that EP retained the supercoiled form of plasmid DNA at 50 Gy radiation dose.
Collapse
Affiliation(s)
- Deepti Sharma
- CBRN Protection and Decontamination Research Group, Division of CBRN Defence, Institute of Nuclear Medicine & Allied Sciences, Timarpur, Delhi, 110054, India
| | - Anju Singh
- Department of Chemistry, Ramjas College, University of Delhi, Delhi, 110007, India; Nucleic Acids Research Lab, Department of Chemistry, University of Delhi, Delhi, 110007, India
| | - Mallika Pathak
- Department of Chemistry, Miranda House, University of Delhi, Delhi, 110007, India
| | - Lajpreet Kaur
- CBRN Protection and Decontamination Research Group, Division of CBRN Defence, Institute of Nuclear Medicine & Allied Sciences, Timarpur, Delhi, 110054, India
| | - Vinod Kumar
- CBRN Protection and Decontamination Research Group, Division of CBRN Defence, Institute of Nuclear Medicine & Allied Sciences, Timarpur, Delhi, 110054, India
| | - Bal G Roy
- Experimental Animal Facility, Institute of Nuclear Medicine & Allied Sciences, Timarpur, Delhi, 110054, India
| | - Himanshu Ojha
- CBRN Protection and Decontamination Research Group, Division of CBRN Defence, Institute of Nuclear Medicine & Allied Sciences, Timarpur, Delhi, 110054, India.
| |
Collapse
|
39
|
Yang J, Liu XR, Yu MK, Yang WB, Yang ZW, Zhao SS. Co and Cu complexes with 2-acetylpyridine-4-hydroxy phenylacetyl acylhydrazone: Synthesis, crystal structures, CT-DNA/BSA binding behaviors, antibacterial activities and molecular docking studies. Polyhedron 2020. [DOI: 10.1016/j.poly.2020.114619] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
|
40
|
Yu Y, Gong QT, Lu WF, Liu YH, Yang ZJ, Wang N, Yu XQ. Aggregation-Induced Emission Probes for Specific Turn-On Quantification of Bovine Serum Albumin. ACS APPLIED BIO MATERIALS 2020; 3:5193-5201. [PMID: 35021694 DOI: 10.1021/acsabm.0c00589] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
A series of aggregation-induced emission (AIE) fluorescence probes, coined 4H-pyrimido[2,1-b]benzothiazole derivatives, has been synthesized by Biginelli reactions. Utilizing spectroscopic techniques, their photophysical properties have been comprehensively investigated in working environment both in vitro and in vivo. Density functional theory (DFT) calculations were performed to better understand the mechanism of these probes. The interactions between 4H-pyrimido[2,1-b]benzothiazoles with different substituents and bovine serum albumin (BSA) were analyzed using UV-vis and fluorescence spectroscopy, synchronous fluorescence, and docking analysis. Studies found that 4H-pyrimido[2,1-b]benzothiazole could bind to bovine serum albumin (BSA) through a hydrogen bond and hydrophobic interactions, resulting in enhancement of fluorescence emission of probes 1a-6f and fluorescence quenching of BSA. Combined with cell imaging experiments, these provide information on potential effects of benzothiazoles on disease treatment.
Collapse
Affiliation(s)
- Yuan Yu
- Key Laboratory of Green Chemistry & Technology, Ministry of Education, College of Chemistry, Sichuan University, Chengdu 610064, P. R. China
| | - Qing-Tian Gong
- Key Laboratory of Green Chemistry & Technology, Ministry of Education, College of Chemistry, Sichuan University, Chengdu 610064, P. R. China
| | - Wei-Fan Lu
- Key Laboratory of Green Chemistry & Technology, Ministry of Education, College of Chemistry, Sichuan University, Chengdu 610064, P. R. China
| | - Yan-Hong Liu
- Key Laboratory of Green Chemistry & Technology, Ministry of Education, College of Chemistry, Sichuan University, Chengdu 610064, P. R. China
| | - Zeng-Jie Yang
- Key Laboratory of Green Chemistry & Technology, Ministry of Education, College of Chemistry, Sichuan University, Chengdu 610064, P. R. China
| | - Na Wang
- Key Laboratory of Green Chemistry & Technology, Ministry of Education, College of Chemistry, Sichuan University, Chengdu 610064, P. R. China
| | - Xiao-Qi Yu
- Key Laboratory of Green Chemistry & Technology, Ministry of Education, College of Chemistry, Sichuan University, Chengdu 610064, P. R. China
| |
Collapse
|
41
|
Yadav N, Singh A, Kaushik M. Hydrothermal synthesis and characterization of magnetic Fe 3O 4 and APTS coated Fe 3O 4 nanoparticles: physicochemical investigations of interaction with DNA. JOURNAL OF MATERIALS SCIENCE. MATERIALS IN MEDICINE 2020; 31:68. [PMID: 32705385 DOI: 10.1007/s10856-020-06405-6] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/30/2020] [Accepted: 07/12/2020] [Indexed: 06/11/2023]
Abstract
Magnetic nanoparticles (MNPs) especially iron oxide (Fe3O4) NPs have quite extensively been used for in vivo delivery of biomolecules and drugs because of their high bioconjugation efficiency. In this study, Fe3O4 NPs and (3-Aminopropyl) triethoxysilane (APTS) coated Fe3O4 NPs were synthesized and their interaction with Calf thymus (Ct) DNA has been studied in order to understand their usage in biomedical applications. Hydrothermal method was used for the NPs synthesis. Characterization of NPs was done using techniques like UV-Visible spectroscopy, FTIR spectroscopy, FE-SEM, EDAX, Zeta Sizer and powder XRD. Further, interaction studies of NPs with Ct-DNA were investigated using various physicochemical techniques. In UV-Visible studies, hypochromicity with binding constant 3.2 × 105 M-1 was observed. Binding constants calculated using fluorescence studies were found to be k = 3.2 × 104 M-1, 2.9 × 104 M-1 at 293 and 323 K respectively. Results of UV-Visible and fluorescence studies were in correlation with other techniques like UV-TM and CD. All studies suggested alteration in DNA conformation on interaction with surface engineered Fe3O4 NPs, stabilizing DNA-NPs conjugate via partial intercalation and electrostatic interactions. This study may facilitate our understanding regarding the physicochemical properties and DNA-binding ability of APTS-Fe3O4 NPs for their further application in magnetosensitive biosensing and drug delivery. Iron oxide based magnetic nanoparticles are well known for their excellent bio-conjugation efficiency and therefore APTS-Fe3O4 NPs were synthesized via very simple and benign hydrothermal method. Further, the interaction of APTS-Fe3O4 NPs with calf thymus DNA was studied using various physicochemical techniques to explore their potential in biomedical applications.
Collapse
Affiliation(s)
- Neelam Yadav
- Nano-bioconjugate Chemistry Lab, Cluster Innovation Centre, University of Delhi, Delhi, India
- Department of Chemistry, University of Delhi, Delhi, India
| | - Amit Singh
- Nano-bioconjugate Chemistry Lab, Cluster Innovation Centre, University of Delhi, Delhi, India
- Department of Chemistry, University of Delhi, Delhi, India
| | - Mahima Kaushik
- Nano-bioconjugate Chemistry Lab, Cluster Innovation Centre, University of Delhi, Delhi, India.
| |
Collapse
|
42
|
Wani TA, Alsaif N, Bakheit AH, Zargar S, Al-Mehizia AA, Khan AA. Interaction of an abiraterone with calf thymus DNA: Investigation with spectroscopic technique and modelling studies. Bioorg Chem 2020; 100:103957. [DOI: 10.1016/j.bioorg.2020.103957] [Citation(s) in RCA: 23] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2020] [Revised: 05/15/2020] [Accepted: 05/18/2020] [Indexed: 01/11/2023]
|
43
|
Maurya N, Imtiyaz K, Alam Rizvi MM, Khedher KM, Singh P, Patel R. Comparative in vitro cytotoxicity and binding investigation of artemisinin and its biogenetic precursors with ctDNA. RSC Adv 2020; 10:24203-24214. [PMID: 35516214 PMCID: PMC9055135 DOI: 10.1039/d0ra02042g] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2020] [Accepted: 05/22/2020] [Indexed: 12/16/2022] Open
Abstract
Artemisinin (ART) and its biogenetic precursors artemisinic acid (AA) and dihydroartemisinic acid (DHAA) are important traditional medicinal herb compounds with tumor growth inhibition properties. Herein, we have studied the cytotoxicity of ART, AA, and DHAA on different cancer cell lines (H1299, A431, and HCT 116) and investigated in detail their binding mechanisms with ctDNA by using spectroscopy, cyclic voltammetry, and computational methods. The UV absorbance, cyclic voltammetry, DNA helix melting, competition binding, and circular dichroism studies suggested that the complex formation of ART-ctDNA and AA-ctDNA occurs through groove binding. However, in the case of DHAA-ctDNA interaction, electrostatic interaction plays a major role. The thermodynamic parameters, viz., ΔG 0, ΔH 0, and ΔS 0 were calculated, which showed the involvement of hydrogen bonds and van der Waals interactions for drug-ctDNA interaction. FTIR and molecular docking results suggested that ART, AA, and DHAA were bound to the A-T rich region in the minor groove of ctDNA.
Collapse
Affiliation(s)
- Neha Maurya
- Biophysical Chemistry Laboratory, Centre for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia New Delhi-110025 India +91 11 26983409 +91 8860634100
| | - Khalid Imtiyaz
- Department of Biosciences, Jamia Millia Islamia New Delhi-110025 India
| | | | - Khaled Mohamed Khedher
- Department of Civil Engineering, College of Engineering, King Khalid University Abha 6421 Saudi Arabia
- Department of Civil Engineering, ISET, DGET Nabeul Tunisia
| | - Prashant Singh
- Department of Chemistry, ARSD College, University of Delhi New Delhi-110021 India
| | - Rajan Patel
- Biophysical Chemistry Laboratory, Centre for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia New Delhi-110025 India +91 11 26983409 +91 8860634100
| |
Collapse
|
44
|
Exploring the interaction of copper-esculetin complex with ct-DNA: Insight from spectroscopic and docking studies. J Mol Struct 2020. [DOI: 10.1016/j.molstruc.2020.127901] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
|
45
|
Shahabadi N, Razlansari M. In vitro spectroscopic investigation of groove binding interaction of Fe 3O 4@CaAl-LDH@L-Dopa with calf thymus DNA. NUCLEOSIDES NUCLEOTIDES & NUCLEIC ACIDS 2020; 39:1020-1035. [PMID: 32345148 DOI: 10.1080/15257770.2020.1740929] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
Abstract
The principal goal of this study is to evaluate the interaction of Fe3O4@CaAl-LDH@L-Dopa and Fe3O4@CaAl-LDH nanoparticles with calf thymus DNA. The magnetic nanoparticles were previously prepared by a chemical co-precipitation method, and the surface of the Fe3O4 nanoparticles was coated with CaAl layered double hydroxides. The antiparkinsonian drug "L-Dopa" was carried by this core-shell nanostructure to achieve the drug delivery system with suitable properties for biological applications. Also, the interaction of Fe3O4@CaAl-LDH@L-Dopa and Fe3O4@CaAl-LDH nanoparticles with CT-DNA was studied using, UV-Visible spectroscopy, viscosity, circular dichroism (CD), and fluorescence spectroscopy techniques. The results of investigations demonstrated that Fe3O4@CaAl-LDH@L-Dopa and Fe3O4@CaAl-LDH nanoparticles have interacted via minor groove binding and intercalated to CT-DNA, respectively.
Collapse
Affiliation(s)
- Nahid Shahabadi
- Department of Inorganic Chemistry, Faculty of Chemistry, Razi University, Kermanshah, Iran.,Medical Biology Research Center (MBRC), University of Medical Sciences, Kermanshah, Iran
| | - Mahtab Razlansari
- Department of Inorganic Chemistry, Faculty of Chemistry, Razi University, Kermanshah, Iran
| |
Collapse
|
46
|
Kıpçak F, Tok TT, Duyar H, Seferoğlu Z, Gökoğlu E. Synthesis of new morpholine containing 3-amido-9-ethylcarbazole derivative and studies on its biophysical interactions with calf thymus DNA/HSA. J Biomol Struct Dyn 2020; 39:1561-1571. [PMID: 32093548 DOI: 10.1080/07391102.2020.1734093] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Abstract
In this work, we presented the synthesis and investigation of binding properties of the new morpholine containing 3-amido-9-ethylcarbazole derivative (CMR) to calf thymus DNA (ctDNA) and human serum albumin (HSA) by fluorescence spectroscopy, UV absorption spectroscopy and molecular docking method. A decrease in Stern-Volmer constants was obtained with increase in temperature; it shows that static quenching mechanism leads to formation of new CMR-DNA/HSA complexes, which have hydrophobic interaction as the predominant role in the binding modes. Also, binding properties of DNA were investigated with competition assays on two probes (EB and H33258) by absorption, ionic strength and iodide ion quenching methods. The results suggested that CMR entered into the minor groove binding on the A-T region of DNA. The spectral data further confirmed by molecular docking which elicited that CMR complexes have similar interaction and conformation trends to each target, DNA and HSA. The experimental and computational results show that CMR has been classified as a promising molecule in drug designing of other carbazole derivatives.Communicated by Ramaswamy H. Sarma.
Collapse
Affiliation(s)
- Fulya Kıpçak
- Department of Chemistry, Hacettepe University, Ankara, Turkey
| | - Tugba Taskın Tok
- Department of Chemistry, Gaziantep University, Gaziantep, Turkey.,Department of Bioinformatics and Computational Biology, Gaziantep University, Gaziantep, Turkey
| | - Halil Duyar
- Department of Chemistry, Gebze Technical University, Kocaeli, Turkey.,Department of Chemistry, Gazi University, Ankara, Turkey
| | | | - Elmas Gökoğlu
- Department of Chemistry, Hacettepe University, Ankara, Turkey
| |
Collapse
|
47
|
Dareini M, Amiri Tehranizadeh Z, Marjani N, Taheri R, Aslani-Firoozabadi S, Talebi A, NayebZadeh Eidgahi N, Saberi MR, Chamani J. A novel view of the separate and simultaneous binding effects of docetaxel and anastrozole with calf thymus DNA: Experimental and in silico approaches. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2020; 228:117528. [PMID: 31718965 DOI: 10.1016/j.saa.2019.117528] [Citation(s) in RCA: 65] [Impact Index Per Article: 16.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/26/2019] [Revised: 09/12/2019] [Accepted: 09/12/2019] [Indexed: 06/10/2023]
Abstract
DNA stands as the primary purpose of many anticancer drugs and according to the performed research on this field, some certain changes contain crucial functionalities in the regulated transcription of DNA. Therefore, the interaction between anticancer drugs and DNA play an important role in understanding their function and also provide a better groundwork for producing more efficient and newer drugs. Here, the interaction between Docetaxel (DO) and calf thymus DNA (ct DNA), in the presence and absence of Anastrozole (AN), has been examined through the usage of different methods that include isothermal titration calorimetry, multi-spectroscopic, viscometry, and molecular docking techniques. Interaction studies have been performed by preparing different molar ratios of DO with the constant ct DNA and AN concentration at pH = 6.8. The binding constants have been calculated to be 7.93 × 104 M-1 and 6.27 × 104 M-1, which indicate the strong binding of DO with ct DNA double helix in the absence and presence of AN, respectively. Thermodynamic parameters, which were obtained from fluorescence spectroscopy and isothermal titration calorimetry, have suggested that the binding of DO and AN to ct DNA as binary and ternary systems have been mainly driven by the electrostatic interactions. The relative viscosity of ct DNA has increased upon the addition of DO and AN, which confirms the interaction mode. A competitive binding study has reported that the enhanced emission intensity of ethidium bromide (EB) and acridine orange (AO), in the presence of ct DNA, have been quenched through the addition of DO and Anastrozole as binary and ternary systems. As it is indicated by these findings, DO is capable of displacing EB and AO from their binding site in ct DNA; hence, it can be concluded that DO and AN are able to intercalate into the base pairs of ct DNA in binary and ternary systems. Molecular docking studies have corroborated the mentioned experimental results.
Collapse
Affiliation(s)
- Maryam Dareini
- Department of Biology, Faculty of Sciences, Mashhad Branch, Islamic Azad University, Mashhad, Iran
| | - Zeinab Amiri Tehranizadeh
- Medicinal Chemistry Department, School of Pharmacy, Mashhad University of Medical Sciences, Mashhad, Iran.
| | - Narges Marjani
- Department of Biology, Faculty of Sciences, Mashhad Branch, Islamic Azad University, Mashhad, Iran
| | - Reza Taheri
- Department of Biology, Faculty of Sciences, Mashhad Branch, Islamic Azad University, Mashhad, Iran
| | | | - Atiye Talebi
- Department of Biology, Faculty of Sciences, Mashhad Branch, Islamic Azad University, Mashhad, Iran
| | - Negar NayebZadeh Eidgahi
- Department of Biology, Faculty of Sciences, Mashhad Branch, Islamic Azad University, Mashhad, Iran
| | - Mohammad Reza Saberi
- Medicinal Chemistry Department, School of Pharmacy, Mashhad University of Medical Sciences, Mashhad, Iran.
| | - Jamshidkhan Chamani
- Department of Biology, Faculty of Sciences, Mashhad Branch, Islamic Azad University, Mashhad, Iran.
| |
Collapse
|
48
|
Peng F, Chen QS, Li FZ, Ou XY, Zong MH, Lou WY. Using deep eutectic solvents to improve the biocatalytic reduction of 2-hydroxyacetophenone to (R)-1-phenyl-1,2-ethanediol by Kurthia gibsonii SC0312. MOLECULAR CATALYSIS 2020. [DOI: 10.1016/j.mcat.2020.110773] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
|
49
|
Khan S, Ahmad R, Naseem I. Elucidating the interaction of aminophylline with calf thymus DNA using multispectroscopic and molecular docking approach. J Biomol Struct Dyn 2020; 39:970-976. [PMID: 31994973 DOI: 10.1080/07391102.2020.1722240] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
Aminophylline (Am) is a methylxanthine compound clinically applied for chronic lung diseases like asthma, bronchitis or emphysema. Chemically, it comprises theophylline and ethylenediamine in a ratio 2:1. For the widening of the therapeutic window of any class of drug or for the designing of the newer therapeutic compound, an insight into the binding mechanics of available drugs with DNA is quite imperative. In view of that, here in this study we have investigated binding mechanics of aminophylline molecule with calf thymus DNA (Ct-DNA) using various spectroscopic techniques as well as molecular docking approach. Spectral analysis employing UV-visible and fluorescence approach confirmed the formation of aminophylline-Ct-DNA complex. The binding constant was calculated as 3.5 × 104 M-1 with 0.90 as the value of binding site suggestive of minor groove binding mode of aminophylline. The groove binding mode was further confirmed through spectrofluorimetric experiments like competitive displacement assay employing ethidium bromide, hoechst and rhodamine 6 G dyes as well as iodide quenching studies. The circular dichroic spectral evaluation and molecular docking study finally validated the minor groove binding mode of aminophylline with binding energy calculated as -4.5 Kcal/mol.
Collapse
Affiliation(s)
- Saniyya Khan
- Department of Biochemistry, Faculty of Life Sciences, Aligarh Muslim University, Aligarh, Uttar Pradesh, India
| | - Rizwan Ahmad
- Department of Biochemistry, Faculty of Life Sciences, Aligarh Muslim University, Aligarh, Uttar Pradesh, India
| | - Imrana Naseem
- Department of Biochemistry, Faculty of Life Sciences, Aligarh Muslim University, Aligarh, Uttar Pradesh, India
| |
Collapse
|
50
|
Varma RR, Pandya JG, Sharma J, Pathak C, Patel MN. DNA interaction, in vivo and in vitro cytotoxicity, reactive oxygen species, lipid peroxidation of -N, S donor Re(I) metal complexes. Mol Divers 2020; 25:687-699. [PMID: 32006296 DOI: 10.1007/s11030-020-10040-2] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2019] [Accepted: 01/20/2020] [Indexed: 10/25/2022]
Abstract
N, S donor ligands (L1-L5){L1-L5 = 1,5-bis(4-chlorophenyl)-3-(thiophen-2-yl)-4,5-dihydro-1H-pyrazole (L1), 1-(4-bromophenyl)-5-(4-chlorophenyl)-3-(thiophen-2-yl)-4,5-dihydro-1H-pyrazole (L2), 5-(4-chlorophenyl)-3-(thiophen-2-yl)-1-(p-tolyl)-4,5-dihydro-1H-pyrazole (L3), 5-(4-chlorophenyl)-1-(4-methoxyphenyl)-3-(thiophen-2-yl)-4,5-dihydro-1H-pyrazole (L4), 5-(4-chlorophenyl)-1-(4-nitrophenyl)-3-(thiophen-2-yl)-4,5-dihydro-1H-pyrazole (L5)} were synthesized by Claisen-Schmidt condensation and characterized by spectrometric methods. The complexes (I-V) were synthesized by ligand combination followed by metal chelation. The binding of the rhenium complexes to Herrin sperm DNA was monitored by UV spectroscopy and viscosity measurements. The groove binding was suggested as the most possible mode, and the Kb values of the complexes were calculated. The mode of interaction was furthermore confirmed by molecular docking. Brine shrimp lethality and Saccharomyces cerevisiae cytotoxicity against the eukaryotic and prokaryotic cells showed the toxic nature of the synthesized compounds. All compounds were found active against S. cerevisiae, which was confirmed by increased ROS production, and DNA damage as compared to untreated yeast cell culture. The oxidative harm to cell structures was affirmed by lipid peroxidation. An antimicrobial study was carried out by estimating minimum inhibitory concentration against two Gram-positive and three Gram-negative bacteria. All complexes show good antiproliferative activity against the HCT 116 cell line. All synthesized complexes are biologically more active than the corresponding ligands.
Collapse
Affiliation(s)
- Reena R Varma
- Department of Chemistry, Sardar Patel University, Vallabh Vidyanagar, Gujarat, 388 120, India
| | - Juhee G Pandya
- B. R. Doshi School of Bioscience, Sardar Patel University, Vallabh Vidyanagar, Gujarat, 388 120, India
| | - Jyoti Sharma
- Department of Cell Biology, School of Biological Sciences and Biotechnology, Indian Institute of Advanced Research, Koba Institutional Area, Gandhinagar, Gujarat, 382007, India
| | - Chandramani Pathak
- Department of Cell Biology, School of Biological Sciences and Biotechnology, Indian Institute of Advanced Research, Koba Institutional Area, Gandhinagar, Gujarat, 382007, India
| | - Mohan N Patel
- Department of Chemistry, Sardar Patel University, Vallabh Vidyanagar, Gujarat, 388 120, India.
| |
Collapse
|