Spectroscopic studies on the thermodynamic and thermal denaturation of the ct-DNA binding of methylene blue

2010 ◽  
Vol 77 (2) ◽  
pp. 528-534 ◽  
Author(s):  
Mudasir ◽  
Endang Tri Wahyuni ◽  
Daryono H. Tjahjono ◽  
Naoki Yoshioka ◽  
Hidenari Inoue
Keyword(s):  
Methylene Blue ◽  
Dna Binding ◽  
Thermal Denaturation ◽  
Spectroscopic Studies ◽  
Ct Dna

scholarly journals Synthesis, spectroscopic studies of novel N-substituted phthalimides and evaluation of their antibacterial, antioxidant, DNA binding and molecular docking studies

2015 ◽  
Vol 10 (3) ◽  
pp. 703 ◽  
Author(s):  
Pattan Sirajuddin Nayab ◽  
Madhusudana Pulaganti ◽  
Suresh Kumar Chitta ◽  
Mohammad Oves ◽  
Rahisuddin .
Keyword(s):  
Molecular Docking ◽  
Dna Binding ◽  
Thermal Studies ◽  
Binding Constants ◽  
Spectroscopic Studies ◽  
Docking Studies ◽  
Antibacterial Screening ◽  
Absorption Studies ◽  
Dna Dodecamer ◽  
Ct Dna

<p class="Abstract">A new series of N-substituted phthalimide derivatives were prepared by condensation of appropriate amount of n-amino tetrachlorophthalimide with respective aldehyde in glacial acetic acid. The structural investigation of the synthesized compounds was done by spectroscopic methods (UV-Vis., IR, <sup>1</sup>H and <sup>13</sup>C NMR) and elemental analysis. The antibacterial screening of these compounds was performed against Escherichia coli and Staphylococcus mutans. The synthesized compounds were evaluated for their antioxidant potential using 2,2-diphenyl-1-picrylhydrazyl (DPPH) as a scavenging agent. The interaction ability of most promising compounds (3a and 3b) with native calf thymus DNA (Ct-DNA) was also studied by means of UV-Vis., circular dichroism (CD), viscosity measurements and thermal studies. The intrinsic binding constants (K<sub>b</sub>) of 3a and 3b with Ct-DNA obtained from UV-Vis. absorption studies were 8 × 10<sup>4</sup> and 1 × 10<sup>5</sup>, respectively. Molecular docking of target compounds (3a and 3b) against DNA dodecamer d(CGCGAATTCGCG)<sub>2</sub> has been carried out. The test compounds exhibited remarkable antibacterial, antioxidant and DNA binding activities.</p><p> </p>

scholarly journals INTERACTION OF IRON(II) MIXED-LIGAND COMPLEXES WITH DNA: BASE-PAIR SPECIFICITY AND THERMAL DENATURATION STUDIES

2010 ◽  
Vol 4 (3) ◽  
pp. 174-179 ◽  
Author(s):  
Mudasir Mudasir ◽  
Karna Wijaya ◽  
Endang Tri Wahyuni ◽  
Hidenari Inoue
Keyword(s):  
Dna Binding ◽  
Electrostatic Interaction ◽  
Base Pair ◽  
Thermal Denaturation ◽  
Spectrophotometric Titration ◽  
Mixed Ligand ◽  
Mixed Ligand Complexes ◽  
Dna Base ◽  
Dna Base Pair ◽  
Ct Dna

A research about base-pair specificity of the DNA binding of [Fe(phen)3]2+, [Fe(phen)2(dip)]2+ and [Fe(phen)(dip)2]2+ complexes and the effect of calf-thymus DNA (ct-DNA) binding of these metal complexes on thermal denaturation of ct-DNA has been carried out. This research is intended to evaluate the preferential binding of the complexes to the sequence of DNA (A-T or G-C sequence) and to investigate the binding strength and mode upon their interaction with DNA. Base-pair specificity of the DNA binding of the complexes was determined by comparing the equilibrium binding constant (Kb) of each complex to polysynthetic DNA that contain only A-T or G-C sequence. The Kb value of the interaction was determined by spectrophotometric titration and thermal denaturation temperature (Tm) was determined by monitoring the absorbance of the mixture solution of each complex and ct-DNA at λ =260 nm as temperature was elevated in the range of 25 - 100 oC. Results of the study show that in general all iron(II) complexes studied exhibit a base-pair specificity in their DNA binding to prefer the relatively facile A-T sequence as compared to the G-C one. The thermal denaturation experiments have demonstrated that Fe(phen)3]2+ and [Fe(phen)2(dip)]2+ interact weakly with double helical DNA via electrostatic interaction as indicated by insignificant changes in melting temperature, whereas [Fe(phen)2(dip)]2+  most probably binds to DNA in mixed modes of interaction, i.e.: intercalation and electrostatic interaction. This conclusion is based on the fact that the binding of [Fe(phen)2(dip)]2+ to ct-DNA moderately increase the Tm value of ct- DNA   Keywords: DNA Binding, mixed-ligand complexes

scholarly journals Synthesis of 10-O-aryl-substituted berberine derivatives by Chan–Evans–Lam coupling and investigation of their DNA-binding properties

2021 ◽  
Vol 17 ◽  
pp. 991-1000
Author(s):  
Peter Jonas Wickhorst ◽  
Mathilda Blachnik ◽  
Denisa Lagumdzija ◽  
Heiko Ihmels
Keyword(s):  
Dna Binding ◽  
Coupling Reaction ◽  
Spectroscopic Studies ◽  
Binding Properties ◽  
Quadruplex Dna ◽  
G4 Dna ◽  
Fluorescence Light ◽  
Berberine Derivatives ◽  
Ct Dna ◽  
Dna Binding Properties

Eleven novel 10-O-aryl-substituted berberrubine and berberine derivatives were synthesized by the Cu2+-catalyzed Chan–Evans–Lam coupling of berberrubine with arylboronic acids and subsequent 9-O-methylation. The reaction is likely introduced by the Cu2+-induced demethylation of berberrubine and subsequent arylation of the resulting 10-oxyanion functionality. Thus, this synthetic route represents the first successful Cu-mediated coupling reaction of berberine substrates. The DNA-binding properties of the 10-O-arylberberine derivatives with duplex and quadruplex DNA were studied by thermal DNA denaturation experiments, spectrometric titrations as well as CD and LD spectroscopy. Fluorimetric DNA melting analysis with different types of quadruplex DNA revealed a moderate stabilization of the telomeric quadruplex-forming oligonucleotide sequence G3(TTAG3)3. The derivatives showed a moderate affinity towards quadruplex DNA (K b = 5–9 × 105 M−1) and ct DNA (K b = 3–5 × 104 M−1) and exhibited a fluorescence light-up effect upon complexation to both DNA forms, with slightly higher intensity in the presence of the quadruplex DNA. Furthermore, the CD- and LD-spectroscopic studies revealed that the title compounds intercalate into ct DNA and bind to G4-DNA by terminal stacking.

scholarly journals The Phenanthridine-modified Tyrosine Dipeptide

2019 ◽  
Vol 92 (2) ◽  
pp. 249-258
Author(s):  
Antonija Erben ◽  
Josipa Matić ◽  
Nikola Basarić ◽  
Ivo Piantanida
Keyword(s):  
Unnatural Amino Acids ◽  
Thermal Denaturation ◽  
Specific Binding ◽  
Quinone Methide ◽  
Melting Temperatures ◽  
Double Helices ◽  
Fluorescence Titrations ◽  
Alkylate Dna ◽  
Ct Dna ◽  
Phenanthridine Derivative

Dipeptide 4 containing two unnatural amino acids, a modified tyrosine and a phenanthridine derivative, was synthesized. Binding of the dipeptide to a series of polynucleotides including ct-DNA, poly A - poly U, poly (dAdT)2, poly dG - poly dC and poly (dGdC)2 was investigated by thermal denaturation experiments, fluorescence spectroscopy and circular dichroism. Thermal denaturation experiments indicated that dipeptide 4 at pH 5.0, when phenanthridine is protonated, stabilizes ds-DNA, whereas it destabilizes ds-RNA. At pH 7.0, when the phenanthridine is not protonated, effects of 4 to the polynucleotide melting temperatures are negligible. At pH 5.0, dipeptide 4 stabilized DNA double helices, and the changes in the CD spectra suggest different modes of binding to ds-DNA, most likely the intercalation to poly dG- poly dC and non-specific binding in grooves of other DNA polynucleotides. At variance to ds-DNA, addition of 4 destabilized ds-RNA against thermal denaturation and CD results suggest that addition of 4 probably induced dissociation of ds-RNA into ss-RNA strands due to preferred binding to ss-RNA. Thus, 4 is among very rare small molecules that stabilize ds-DNA but destabilize ds-RNA. However, fluorescence titrations with all polynucleotides at both pH values gave similar binding affinity (log Ka ≈ 5), indicating nonselective binding. Preliminary photochemical experiments suggest that dipeptide 4 reacts in the photochemical reaction, which affects polynucleotides chirality, presumably via quinone methide intermediates that alkylate DNA.

scholarly journals Novel Alkyl(aryl)-Substituted 2,2-Difluoro-6-(trichloromethyl)-2H-1,3,2-oxazaborinin-3-ium-2-uides: Synthesis, Antimicrobial Activity, and CT-DNA Binding Evaluations

2020 ◽  
Vol 11 ◽  
Author(s):  
Wilian C. Rosa ◽  
Inaiá O. Rocha ◽  
Melissa B. Rodrigues ◽  
Helena S. Coelho ◽  
Laura B. Denardi ◽  
...  
Keyword(s):  
Antimicrobial Activity ◽  
Dna Binding ◽  
Alkyl Aryl ◽  
Ct Dna

scholarly journals Organoruthenium(II) thiosemicarbazone complexes: synthesis, spectral characterization, DNA binding and DNA cleavage studies

2013 ◽  
Vol 11 (6) ◽  
pp. 1010-1018 ◽  
Author(s):  
Gunasekaran Raja ◽  
Chinnasamy Jayabalakrishnan
Keyword(s):  
Elemental Analysis ◽  
13C Nmr ◽  
Dna Cleavage ◽  
Spectroscopic Studies ◽  
Spectral Studies ◽  
Mass Spectral ◽  
Cleavage Activity ◽  
Dna Cleavage Activity ◽  
Thiosemicarbazone Complexes ◽  
Ct Dna

AbstractA series of new ruthenium(II) complexes were synthesized with Schiff bases derived from salicylaldehyde / o-hydroxyacetophenone/ o-vanillin / 2-hydroxy-1-naphthaldehyde with thiosemicarbazide and acetyl furan. They are characterized by elemental analysis, IR, electronic, 1H NMR, 13C NMR and mass spectral studies. The elemental analysis suggests the stoichiometry to be 1:1 (metal:ligand). Four of these complexes were tested for its binding with CT-DNA using absorption spectroscopic studies and two of these complexes exhibit efficient DNA cleavage activity.

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