Photophysical Behaviour of Naproxen On DNA, RNA, BSA, Dendrimer and Silver Nanoparticles: Spectral and Molecular Docking Studies
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Absorption, emission and molecular docking characteristics of the naproxen drug with (DNA, RNA, BSA, Dendrimer) biomolecules and silver nanoparticles were analysed. With the addition of NP, the absorption and emission maxima of the biomolecules completely disappeared, and no significant spectral shift was noticed in the NP drug. When biomolecule concentrations increased, the absorption and emission intensities of the drug were gradually changed. The negative free energy values indicate the spontaneity of the binding between the drugs and biomolecules. van der Waals force and hydrogen bonding play major roles in the sensing of the drugs and biomolecules. Due to Ag nanoparticles interaction with NP/biomolecules, a blue or red shift was noticed in the absorption and emission spectra. Molecular docking results indicated that the biomolecules interacted with the O and H groups of the NP drug. The sensing behaviour of NP with DNA is higher than other biomolecules. NP drug demonstrates promising anticancer activity through interactions with both the 1r51 and 2oh4 EGFR protein targets.
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Harrison SC. A structural taxonomy of DNA-binding domains. Nature. 1991;353:715–719. https://doi.org/10.1038/353715a0
Luisi BF. In: Lilley DMJ (ed) DNA–Protein Interaction at High Resolution. DNA–Protein Structural Interactions. New York: Oxford University Press; 1995. p. 1–48.
Luscombe NM, Austin SE, Berman HM, Thornton JM. An overview of the structures of protein–DNA complexes. Genome Biol. 2000;1:1. https://doi.org/10.1186/gb-2000-1-1-reviews001
Luscombe NM, Laskowski A, Thornton JM. Amino acid–base interactions: a three-dimensional analysis of protein–DNA interactions at an atomic level. Nucleic Acids Res. 2001;29:2860–2874. https://doi.org/10.1093/nar/29.13.2860
Yonezawa M, Doi N, Kawahashi Y, Higashinakagawa T, Yanagawa H. DNA display for in vitro selection of diverse peptide libraries. Nucleic Acids Res. 2003;31:e118. https://doi.org/10.1093/nar/gng119
Smolina IV, Demidov VV, Frank-Kamenetskii MD. Pausing of DNA polymerases on duplex DNA templates due to ligand binding in vitro. J Mol Biol. 2003;326:1113–1125. https://doi.org/10.1016/S0022-2836(03)00044-5
Namanbhoy T, Morales AJ, Abraham AT, Vortler CS, Giege R, Schimmel P. Simultaneous binding of two proteins to opposite sides of a single transfer RNA. Nat Struct Biol. 2001;8:344–348. https://doi.org/10.1038/87549
Moras D. Aminoacyl-tRNA synthetases: structural and functional considerations of the aminoacylation reaction. Curr Opin Struct Biol. 1998;2:138–144.
Varani G, Nagai K. RNA recognition by RNP proteins during RNA processing. Annu Rev Biophys Biomol Struct. 1998;27:407–445. https://doi.org/10.1146/annurev.biophys.27.1.407
Jones S, Daley DTA, Luscombe NM, Berman HM, Thornton JT. Protein–RNA interactions: a structural analysis. Nucleic Acids Res. 2001;29:943–954. https://doi.org/10.1093/nar/29.4.943
Mani A, Ramasamy P, Antony Muthu Prabhu A, Rajendiran N. Investigation of Ag and Ag/Co bimetallic nanoparticles with naproxen–cyclodextrin inclusion complex. J Mol Struct. 2023;1284:135301. https://doi.org/10.1016/j.molstruc.2023.135301
Mani A, Venkatesh G, Senthilraja P, Rajendiran N. Synthesis and characterisation of Ag–Co–Venlafaxine–Cyclodextrin nanorods. Eur J Adv Chem Res. 2024;5:9–16. https://doi.org/10.24018/ejchem.2024.5.1.147
Mani A, Ramasamy P, Antony Muthu Prabhu A, Senthilraja P, Rajendiran N. Synthesis and analysis of Ag/Olanzapine/Cyclodextrin and Ag/Co/Olanzapine/Cyclodextrin inclusion complex nanorods. Phys Chem Liq. 2024;62:196–209. https://doi.org/10.1080/00319104.2023.2297223
Mani A, Ramasamy P, Antony Muthu Prabhu A, Senthilraja P, Rajendiran N. Synthesis and characterisation of Ag/Co/Chloroquine/Cyclodextrin inclusion complex nanomaterials. J Sol-Gel Sci Technol. 2025;115:844–856. https://doi.org/10.1007/s10971-024-06620-5
Morris GM, Goodsell DS, Halliday RS, Huey R, Hart WE, Belew RK, Olson AJ. Automated docking using a Lamarckian genetic algorithm and an empirical binding free energy function. J Comput Chem. 1998;19:1639–1662. https://doi.org/10.1002/(SICI)1096-987X(19981115)19:14<1639::AID-JCC10>3.0.CO;2-B
Halgren TA. Merck molecular force field. I. Basis, form, scope, parameterization, and performance of MMFF94. J Comput Chem. 1996;17:490–519. https://doi.org/10.1002/(SICI)1096-987X(199604)17:5/6<490::AID-JCC1>3.0.CO;2-P
Huey R, Morris GM, Olson AJ, Goodsell DS. A semiempirical free energy force field with charge-based desolvation. J Comput Chem. 2007;28:1145–1152. https://doi.org/10.1002/jcc.20634
Morris GM, Lim-Wilby M. Molecular docking. In: Kukol A, editor. Molecular modeling of proteins. Methods Mol Biol. Totowa, NJ: Humana Press; 2008. p. 365–382. https://doi.org/10.1007/978-1-59745-177-2_19
Trott O, Olson AJ. AutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading. J Comput Chem. 2010;31:455–461. https://doi.org/10.1002/jcc.21334
Hill DA, Reilly PJ. Scoring functions for AutoDock. In: Lütteke T, Frank M, editors. Glycoinformatics. Methods Mol Biol. Springer; 2015. p. 467–474. https://doi.org/10.1007/978-1-4939-2343-4_27
Rajendiran N, Thulasidhasan J. Interaction of sulfanilamide and sulfamethoxazole with bovine serum albumin and adenine: spectroscopic and molecular docking investigations. Spectrochim Acta A Mol Biomol Spectrosc. 2015;144:183–191. https://doi.org/10.1016/j.saa.2015.01.127
Rajendiran N, Thulasidhasan J. Study of the binding of thiazolyazoresorcinol and thiazolyazocresol dyes with BSA and adenine by spectral, electrochemical and molecular docking methods. Can Chem Trans. 2015;3:291–307. https://doi.org/10.13179/canchemtrans.2015.03.03.0209
Rajendiran N, Thulasidhasan J. Binding of sulfamerazine and sulfamethazine to bovine serum albumin and nitrogen purine base adenine: a comparative study. Int Lett Chem Phys Astron. 2015;59:170–187. https://doi.org/10.18052/www.scipress.com/ILCPA.59.170
Rajendiran N, Thulasidhasan J. Spectral, electrochemical and molecular docking studies on the interaction of dothiepin and doxepin with BSA and DNA base. Luminescence. 2016;31:1438–1447. https://doi.org/10.1002/bio.3126
Rajendiran N, Thulasidhasan J. Effects of interaction between non-steroidal anti-inflammatory drugs with BSA and DNA base: spectral, electrochemical and molecular docking methods. J Indian Chem Soc. 2017;94:83–93.
Rajendiran N, Thulasidhasan J, Suresh M. Investigation on the interaction of sulfonyl derivatives with BSA and DNA base by spectral and molecular docking analysis. Arch Appl Sci Res. 2017;9:11–18.
Rajendiran N, Suresh M. Spectroscopic, electrochemical and molecular docking studies on the biosensing of ofloxacin, norfloxacin with different biomolecules. Int J Chem Pharm Sci. 2017;8:1–18.
Rajendiran N, Thulasidhasan J, Suresh M. Interaction of azo dyes with BSA and adenine: spectral, electrochemical and molecular docking methods. Der Pharma Chemica. 2018;10:50–66.
Thulasidhasan J, Anandhi R, Venkat Kumar G, Rajendiran N. Interaction of fast garnet GBC with bovine serum albumin: spectral, electrochemical and molecular docking methods. Int J Innov Res Stud. 2018;8:111–119.
Rajendiran N, Suresh M. Study of the interaction of ciprofloxacin and sparfloxacin with biomolecules by spectral, electrochemical and molecular docking methods. Int Lett Chem Phys Astron. 2018;78:1–29. https://doi.org/10.18052/www.scipress.com/ILCPA.78.1
[31] Liu J, Zhang T, Lu T, Qu L, Zhou H, Zhang Q, Ji L. DNA-binding and cleavage studies of macrocyclic copper(II) complexes. J Inorg Biochem. 2002;91:269–276. https://doi.org/10.1016/S0162-0134(02)00441-5
Sirajuddin M, Ali S, Haider A, Shah NA, Shah A, Khan MR. Synthesis, characterization, biological screenings and interaction with calf thymus DNA as well as electrochemical studies of azomethine–organotin(IV) chloride adducts. Polyhedron. 2012;40:19–31. https://doi.org/10.1016/j.poly.2012.03.048
Sirajuddin M, Ali S, Shah NA, Khan MR, Tahir MN. Synthesis, characterization, biological screenings and interaction with calf thymus DNA of a novel azomethine derivative. Spectrochim Acta A Mol Biomol Spectrosc. 2012;94:134–142. https://doi.org/10.1016/j.saa.2012.03.068
Arjmand F, Jamsheera A. DNA binding studies of new valine-derived chiral complexes of tin(IV) and zirconium(IV). Spectrochim Acta A Mol Biomol Spectrosc. 2011;78:45–51. https://doi.org/10.1016/j.saa.2010.06.009
Pratviel G, Bernadou J, Meunier B. DNA and RNA cleavage by metal complexes. Adv Inorg Chem. 1998;45:251–300. https://doi.org/10.1016/S0898-8838(08)60027-6
Shahabadi N, Kashanian S, Khosravi M, Mahdavi M. Multispectroscopic DNA interaction studies of a water-soluble nickel(II) complex containing different dinitrogen aromatic ligands. Transit Met Chem. 2010;35:699–705. https://doi.org/10.1007/s11243-010-9382-x
Kumar KA, Reddy KL, Vidhisha S, Satyanarayana S. Synthesis, characterization, DNA binding and photocleavage studies of [Ru(bpy)₂BDPPZ]²⁺, [Ru(dmb)₂BDPPZ]²⁺ and [Ru(phen)₂BDPPZ]²⁺ complexes and their antimicrobial activity. Appl Organomet Chem. 2009;23:409–420. https://doi.org/10.1002/aoc.1534
Shah A, Zaheer M, Qureshi R, Akhter Z, Nazar MF. Voltammetric and spectroscopic investigations of 4-nitrophenylferrocene interacting with DNA. Spectrochim Acta A Mol Biomol Spectrosc. 2010;75:1082–1087. https://doi.org/10.1016/j.saa.2009.12.061
Slistan-Grijalva A, Herrera-Urbina R, Rivas-Silva J, Ávalos-Borja M, Castillón-Barraza F, Posada-Amarillas A. Classical theoretical characterization of the surface plasmon absorption band for silver spherical nanoparticles suspended in water and ethylene glycol. Physica E. 2005;27:104–112. https://doi.org/10.1016/j.physe.2004.10.014
Fayaz AM, Balaji K, Girilal M, Kalaichelvan P, Venkatesan R. Myco-based synthesis of silver nanoparticles and their incorporation into sodium alginate films for vegetable and fruit preservation. J Agric Food Chem. 2009;57:6246–6252. https://doi.org/10.1021/jf900337h
Sastry M, Mayya K, Bondyopadhyay K. pH-dependent changes in the optical properties of carboxylic acid derivatized silver colloidal particles. Colloids Surf A Physicochem Eng Asp. 1997;127:221–228. https://doi.org/10.1016/S0927-7757(97)00087-3
Wu S, Yang C, Tsao F, Huang P, Chung M, Li WH. Tunneling magnetoresistance in Ag/Co nanoparticle composites. J Magn Magn Mater. 2005;294:e83–e86. https://doi.org/10.1016/j.jmmm.2005.03.059
Wang H, Qiao X, Chen J, Ding S. Preparation of silver nanoparticles by chemical reduction method. Colloids Surf A Physicochem Eng Asp. 2005;256:111–115. https://doi.org/10.1016/j.colsurfa.2004.12.058
Garcia-Torres J, Vallés E, Gómez E. Synthesis and characterization of Co@Ag core–shell nanoparticles. J Nanopart Res. 2010;12:2189–2199. https://doi.org/10.1007/s11051-009-9784-x
Sobal NS, Hilgendorff M, Moehwald H, Giersig M, Spasova M, Radetic T, Farle M. Synthesis and structure of colloidal bimetallic nanocrystals: the non-alloying system Ag/Co. Nano Lett. 2002;2:621–624. https://doi.org/10.1021/nl025533
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