Binding and Photocleavage Studies of Ru (II) Polypyridyl Complexes with DNA: An In Silico and Antibacterial activity

Abstract

Supplementary Information ExperimentalAll the Reagents and solvents of analytical grade were used as received unless otherwise stated. 1, 10-Phenanthroline monohydrate (phen), 2,2'-bipyridine (bpy),4,4'-dimethyl-2,2'-bipyridine (dmb), and 4,4'-dimethyl-1,10 orthophenonthroline (dmp) were procured from Merck. Calf thymus DNA (CT-DNA) was purchased from Aldrich, Super coiled pBR322 plasmid DNA (stored at 20ºC) from Fermentas Life Sciences and was utilized as it is. Agarose gel was bought from Genei. Ultrapure Milli-Q water (18.2mX) was used in all experiments.The binding affinity of metal complex for CT-DNA was calculated in tris (hydroxymethyl) amino methane, Tris-HCl buffer (5 m.mol Tris-HCl, 50 mM NaCl, pH 7.2). The DNA, free of protein was observed at an absorbance of 260 and 280 nm and a concentration of DNA per nucleotide at a molar extinction Coefficient of 6600 M -1 cm -1 was determined spectrophotometrically 1,2 . Stock solutions of DNA were kept at 40ºC and were put to use in less than four days. The stock solutions

Photocleavable Ortho-Nitrobenzyl-Protected DNA Architectures and Their Applications

“…134−136 One approach to couple light to DNA structures involves the binding of π-conjugated chromophores as intercalators or groove binders into duplex DNA 137−140 or the affinity complexation of metal−organic complexes, such as Ru(II)-polypyridine complexes, to minor/major groove domains of duplex DNA structures or as intercalators. 141−144 Photoinduced electron transport across duplex DNA scaffolds and the probing of the conductivity features along the structures, 145,146 and photoinduced electron transfer accompanied by DNA cleavage 147,148 attracted substantial research efforts. In addition, the discovery that photoisomerizable molecular organic agents such as trans/cis azobenzene compounds exhibit light-controlled binding intercalation affinities toward duplex DNA structures played a key role in the development of the area of DNA nanotechnology.…”

“…The interaction of light and nucleic acid structures has attracted specific interest. In contrast to the interaction of auxiliary triggers such as pH, chemical agents, enzymes or oligonucleotide fuel/antifuel strands to manipulate DNA structures, all of which alter the composition of the systems by generating waste products, light provides a clean energy source to control the structures and properties of oligonucleotides. − One approach to couple light to DNA structures involves the binding of π-conjugated chromophores as intercalators or groove binders into duplex DNA − or the affinity complexation of metal–organic complexes, such as Ru­(II)-polypyridine complexes, to minor/major groove domains of duplex DNA structures or as intercalators. − Photoinduced electron transport across duplex DNA scaffolds and the probing of the conductivity features along the structures, , and photoinduced electron transfer accompanied by DNA cleavage , attracted substantial research efforts. In addition, the discovery that photoisomerizable molecular organic agents such as trans / cis azobenzene compounds exhibit light-controlled binding intercalation affinities toward duplex DNA structures played a key role in the development of the area of DNA nanotechnology .…”