Biomedical subjects

M Maiti

Publications and source records attributed to M Maiti.

At least 19 recordsLinked to original sources

PubMed2006

Thick target neutron dose evaluation for 19F+Al system.

Measured angular distribution of neutron dose from 110 MeV (19)F projectiles bombarding a thick aluminium target is reported. The measurements are carried out with a commercially available rem meter at 0 degrees, 30 degrees, 60 degrees and 90 degrees. The experimental results are compared with calculated dose from different empirical formulations proposed by earlier workers as well as with calculated dose from theoretically estimated energy distributions from the nuclear reaction model code EMPIRE-2.18.

Algorithms↗

PubMed2003

Non-radiative depletion of the excited electronic states of 9-cyanoanthracene in presence of tetrahydronaphthols.

Both steady state and time resolved spectroscopic measurements reveal that the prime process involved in quenching mechanism of the lowest excited singlet (S1) and triplet (T1) states of the well known electron acceptor 9-Cyanoanthracene (9CNA) in presence of 5,6,7,8-tetrahydro-1-naphthol (TH1N) or 5,6,7,8-tetrahydro-2-naphthol (TH2N) is H-bonding interaction. It has been confirmed that the fluorescence of 9CNA is not at all affected in presence of 5,6,7,8-tetrahydro-2-methoxy naphthalene (TH2MN) both in non-polar n-heptane (NH) and highly polar acetonitrile (ACN) media. This indicates that the H-bonding interaction is crucial for the occurrence of the quenching phenomenon observed in the present investigations with TH1N (or TH2N) donors and 9CNA acceptor. In ACN solvent both contact ion-pair (CIP) and solvent-separated (or dissociated) ions are formed due to intermolecular H-bonding interactions in the excited electronic states (both singlet and triplet). In NH environment due to stronger H-bonding interactions, the large proton shift within excited charge transfer (CT) or ion-pair complex, 1 or 3(D+-H...A-), causes the formation of the neutral radical, 3(D+H-A)*, due to the complete detachment of the H-atom. It is hinted that both TH1N and TH2N due to their excellent H-bonding ability could be used as antioxidants.

Anthracenes↗

PubMed2002

Nature of non-radiative processes involved in the excited state of 9-cyanoanthracene in presence of 2-methylindole/2-methylindoline quenchers. A laser flash photolysis study to reveal the medium effects.

By using steady state and time-resolved (laser flash photolysis and single photon counting) spectroscopic techniques the quenching of the lowest excited singlet (S1) state of 9-cyanoanthracene (9CNA) by the donors (quenchers) 2-methylindole (2MI) and 2-methylindoline (2MIN) in solvents of different polarity has been studied. Both the transient absorption, by laser flash photolysis technique, and photobleaching measurements were made at the ambient temperature both in non-polar n-heptane (NH) and highly polar acetonitrile (ACN) solvents. The photobleaching efficiency (alpha) was found to depend significantly on the polarity of surrounding solvents and also on the molecular structures of the quenchers. In NH the values of alpha are found to be larger than the corresponding values observed in ACN for both 2MI and 2MIN which possess highly reactive H atom bound to the heterocyclic N atom. Following the results obtained from the transient absorption spectra of the present donor-acceptor molecules in the different polarity solvents, a scheme describing the overall reaction mechanisms of the different photoreactions involved has been proposed. The probable causes for the changes observed in the mechanisms of the photoreactions involved in the cases of 2MI and 2MIN donors have been discussed in the light of their canonical structures.

Anthracenes↗

PubMed1999

Spectroscopic studies on the interaction of aristololactam-beta-D-glucoside with DNA and RNA double and triple helices: A comparative study.

The interaction of aristololactam-beta-D-glucoside (ADG), a DNA intercalating alkaloid, with the DNA triplexes, poly(dT). poly(dA)xpoly(dT) and poly(dC).poly(dG)xpoly(dC+), and the RNA triplex poly(rU).poly(rA)xpoly(rU) was investigated by circular dichroic, UV melting profile, spectrophotometric, and spectrofluorimetric techniques. Comparative interaction with the corresponding Watson-Crick duplexes has also been examined under identical experimental conditions. Triplex formation has been confirmed from biphasic thermal melting profiles and analysis of temperature-dependent circular dichroic measurements. The binding of ADG to triplexes and duplexes is characterized by the typical hypochromic and bathochromic effects in the absorption spectrum, quenching of steady-state fluorescence intensity, a decrease in fluorescence quantum yield, an increase or decrease of thermal melting temperatures, and perturbation in the circular dichroic spectrum. Scatchard analysis indicates that ADG binds both to the triplexes and the duplexes in a noncooperative manner. Binding parameters obtained from spectrophotometric measurements are best fit by the neighbor exclusion model. The binding affinity of ADG to the DNA triplexes is substantially stronger than to the RNA triplex. Thermal melting study further indicates that ADG stabilizes the Hoogsteen base-paired third strand of the DNA triplexes whereas it destabilizes the same strand of RNA triplex but stabilizes its Watson-Crick strands. Comparative data reveal that ADG exhibits a stronger binding to the triple helical structures than to the respective double helical structures.

Alkaloids↗

PubMed1999

Conversions of the left-handed form and the protonated form of DNA back to the bound right-handed form by sanguinarine and ethidium: a comparative study.

The interaction of sanguinarine and ethidium with right-handed (B-form), left-handed (Z-form) and left-handed protonated (designated as H(L)-form) structures of poly(dG-dC).poly(dG-dC) and poly(dG-me5dC).poly(dG-me5dC) was investigated by measuring the circular dichroism and UV absorption spectral analysis. Both sanguinarine and ethidium bind strongly to the B-form DNA and convert the Z-form and the H(L)-form back to the bound right-handed form. Circular dichroic data also show that the conformation at the binding site is right-handed, even though adjacent regions of the polymer have a left-handed conformation either in Z-form or in H(L)-form. Both the rate and extent of B-form to Z-form transition were decreased by sanguinarine and ethidium under ionic conditions that otherwise favour the left-handed conformation of the polynucleotides. The rate of decrease is faster in the case of ethidium as compared to that of sanguinarine. Scatchard analysis of the spectrophotometric data shows that sanguinarine binds strongly to both the polynucleotides in a non-cooperative manner under B-form conditions, in sharp contrast to the highly-cooperative binding under Z-form and H(L)-form conditions. Correlation of binding isotherms with circular dichroism data indicates that the cooperative binding of sanguinarine under the Z-form and the H(L)-form conditions is associated with a sequential conversion of the polymer from a left-handed to a bound right-handed conformation. Determination of bound alkaloid concentration by spectroscopic titration technique and the measurement of circular dichroic spectra have enabled us to calculate the number of base pairs of Z-form and H(L)-form that adopt a right-handed conformation for each bound alkaloid. Analysis reveals that 2-3 base pairs (bp) of Z-form of poly(dG-dC).poly(dG-dC) and poly(dG-me5dC).poly(dG-me5dC) switch to the right-handed form for each bound sanguinarine, while approximately same number of base pairs switch to the bound right-handed form in complexes with H(L)-form of these polynucleotides. Comparative binding analysis shows that ethidium also converts approximately 2 bp of Z-form or H(L)-form to bound right-handed form under same experimental conditions. Since sanguinarine binds preferentially to alternating GC sequences, which are capable of undergoing the B to Z or B to H(L) transition, these effects may be an important part in understanding its extensive biological activities.

Journal Article↗

PubMed1998

Interaction of the antitumour alkaloid coralyne with duplex deoxyribonucleic acid structures: spectroscopic and viscometric studies.

The interaction of coralyne, an antitumour alkaloid with natural and synthetic duplex DNAs was investigated under conditions where the drug existed fully as a true monomer for the first time using spectrophotometric, spectrofluorimetric, circular dichroic and viscometric techniques. The absorption spectrum of coralyne monomer showed hypochromic and bathochromic effects on binding to duplex DNAs. This effect was used to determine the binding parameters of coralyne. The binding constants for four natural DNAs and four synthetic polynucleotides obtained from spectrophotometric titration, according to an excluded site model, using McGhee-von Hippel analysis, were all in the range of (0.38-9.8) x 10(5) M-1, and showed a relatively high specificity for the GC rich ML DNA and the alternating GC polynucleotide. The binding of coralyne decreased with increasing ionic strength, indicating that the binding affinity has a strong electrostatic component. Coralyne stabilized all the DNAs against thermal strand separation. The intense steady state fluorescence of coralyne was effectively quenched on binding to DNAs and the quantitative data on the Stern-Volmer quenching constant obtained was sequence dependent, being maximum with the GC rich DNA and alternating GC polymer. Circular dichriosm studies further evidenced for a strong perturbation of the B-conformation of DNAs consequent to coralyne binding with the concomitant development of extrinsic circular dichroic bands for the bound drug molecules suggesting their strong intercalated geometry in duplex DNAs. Further tests of intercalation using viscosity measurements on linear and covalently closed plasmid DNA conclusively proved the strong intercalation of coralyne in duplex DNA. Binding of the closely related natural alkaloid, berberine under these conditions showed considerably lower affinity to duplex DNAs in all experiments. Taken together, these results suggest that coralyne binds strongly to duplex DNAs by a mechanism of intercalation with specificity towards alternating GC duplex structure.

Animals↗

PubMed1996

Interactions of aristololactam beta-D-glucoside with right-handed and left-handed forms of synthetic deoxyribonucleic acid: spectroscopic and thermodynamic study.

The interaction of aristololactam beta-D-glucoside (ADG) with different polymorphic structures of poly(dG-me5dC).poly(dG-me5dC), poly(dG-dC).poly(dG-dC), and poly(dI-dC). poly(dI-dC) has been studied by spectrophotometric, spectrofluorimetric, circular dichroism, UV melting profiles, and thermodynamic analysis. The binding of ADG to B-form duplexes is characterized by the typical bathochromic and hypochromic effects in the absorption spectrum, quenching of steady-state fluorescence intensity, a decrease in fluorescence quantum yield of ADG, an increase in fluorescence polarization anisotropy, an increase of thermal transition temperature, and perturbation in circular dichroic spectrum. Scatchard analysis indicates that ADG binds to the right-handed form of each polymer in a noncooperative manner. Comparative binding parameters determined from absorbance titration by Scatchard analysis, employing the excluded site model, indicate a stronger binding of ADG to the B-form of poly(dG-me5-dC). poly(dG-me5dC) than to the B-form of poly(dG-dC).poly(dG-dC) or poly(dI-dC). poly(dI-dC). Thermodynamic parameters (delta G degree, delta H degree, and delta S degree) obtained by van't Hoff analysis of the data show that the process of binding to all B-form duplexes is exothermic and enthalpy driven as characterized by a favorable negative enthalpy change (delta H degree). The binding is opposed by a negative entropy change (delta S degree) contribution. Conformational changes indicate that the alkaloid converts the left-handed form of poly(dG-dC). poly(dG-dC), and its methylated analogue and high salt form of poly(dI-dC). poly(dI-dC) to a bound right-handed form, while it inhibits both the rate and extent of the B to Z transition. These studies reveal that ADG binds strongly to B-form polymers while it does not bind to polymers of Z-form.

Alkaloids↗

PubMed1996

Thermodynamics of the interactions of sanguinarine with DNA: influence of ionic strength and base composition.

Using a combination of spectrophotometric and spectrofluorimetric techniques, we report the first thermodynamic characterization of sanguinarine binding to a series of natural and synthetic host DNA duplexes over a wide range of temperature and sodium concentration. The binding isotherms fit reasonably well to the neighbour exclusion model. The salt and temperature dependence of the binding constants is used to estimate the thermodynamic parameters involved in the interaction of the alkaloid with DNA. The resulting binding data are found to be sensitive to the ionic strength of the medium, base composition and sequence of base pairs. When the sodium ion concentration is increased from 0.005 M to 0.5 M, the binding free energy changes vary in a range from -8.47 to -7.1 kcal mol-1, which corresponds to a binding constant range from 1.85 x 10(6) to 1.8 x 10(5) M-1 at 20 degrees C. More distinct is the spread in the binding enthalpy changes which range from -6.35 to -2.62 kcal mol-1 corresponding to binding entropy changes from +7.22 to +15.3 cal K-1 mol-1 at 20 degrees C. On the other hand when the GC content of the host DNA duplexes is increased, the binding free energy varies in a range from -7.28 to -8.58 kcal mol-1 with the binding enthalpy changes ranging from -0.46 to -14.31 kcal mol-1, while corresponding binding entropy changes range from +23.3 to -19.56 cal K-1 mol-1 at 20 degrees C. Sanguinarine binding to natural DNAs and homo- and heteropolymers of AT is characterized by negative enthalpy changes and positive entropy changes, while binding to homo- and heteropolymers of GC is reflected by both negative enthalpy changes and entropy changes. Possible molecular contributions towards sign and magnitude of the thermodynamic parameters and their dependence on ionic strength, base composition and sequences, are discussed.

Alkaloids↗

PubMed1996

SCATPLOT: a computer program for determination of binding parameters of non-linear non-cooperative ligand-substrate interactions.

The importance of computer-assisted analysis of a non-linear binding phenomenon through Scatchard equation has been widely acknowledged. While several user-friendly softwares [LIGAND, SCTFIT, ALLFIT] are available for determining the binding parameters of nonlinear Scatchard phenomenon, there is no easily available software covering the class of phenomena described by the McGhee and von Hippel formalism [J. Mol. Biol. 86, 469-489 (1974)]. We report here user-friendly software, SCATPLOT, developed in Turbo BASIC, for the numerical estimation of binding parameters of a non-cooperative ligand-substrate interaction doing best fit to the experimental data on the basis of McGhee and von Hippel equation for a nonlinear Scatchard plot. A new parameter has also been incorporated to guide the process of least square analysis and subsequent determination of binding parameters.

Algorithms↗

PubMed1995

1H NMR investigation of the interaction of berberine and sanguinarine with DNA.

Interaction of the alkaloids, berberine and sanguinarine with calf thymus DNA has been studied by 1H NMR. All proton resonances of the two compounds have been assigned using 2D-COSY, NOESY and ROESY spectra. Berberine has been found to partially intercalate into DNA, while sanguinarine shows normal intercalation and also binds more firmly to DNA. The NMR experiments indicate that sanguinarine is more potent than berberine in its activity.

Alkaloids↗

PubMed1994

Interaction of sanguinarine iminium and alkanolamine form with calf thymus DNA.

The interaction of sanguinarine iminium form (structure I) and sanguinarine alkanolamine form (structure II) with calf thymus DNA has been studied in buffer of pH 5.2 and pH 10.5, respectively, where the physicochemical properties of DNA remain unchanged. The binding of sanguinarine iminium form to DNA is characterized by hypochromism and bathochromism in the absorption band, quenching of fluorescence intensity, increase in fluorescence polarization anisotropy, increase in positive and negative ellipticity of DNA, sign and magnitude of the thermodynamic parameters and increase in contour length of sonicated rodlike duplex DNA indicating that it binds to DNA by a mechanism of intercalation. In contrast, sanguinarine alkanolamine form does not show (i) any significant change in fluorescence polarization anisotropy, (ii) alteration of B form structure of DNA and (iii) increase in contour length of DNA indicating that it does not bind to DNA. But at a very high concentration of DNA, the alkanolamine form is influenced to form an iminium-DNA complex.

Alkaloids↗

PubMed1994

DNA polymorphism under the influence of low pH and low temperature.

The polymorphic behaviour on the conformation of a alternating GC polymer and its methylated analogue has been studied under the influence of low pH, low temperature and low ionic strength from the measurements of UV-absorption and circular dichroic spectroscopy. Studies indicate that both the polymers isomerize to a stable left handed type conformations. The duplex nature of these conformations were inferred from thermal denaturation curves and the temperature dependence of the CD spectra. In natural DNA, the influence of low pH and low temperature also shows a defined conformational change, characterized by two positive CD bands. This conformational status is achieved in all DNAs irrespective of base composition or sequence of base pairs. Further evidence to this altered polymorphic state of natural DNAs is inferred from ethidium binding study.

Animals↗

PubMed1993

Thermodynamics of the interaction of berberine with DNA.

The interaction of berberine [7,8,13,13a-tetrahydro-9-10-dimethoxy-2,3-(methylene dioxy)-berberinium] with calf thymus DNA has been studied by spectrophotometry in buffers of various salt concentrations and temperatures. Binding parameters obtained are best fit by the neighbour exclusion model. The salt and temperature dependence of the binding constants are used to estimate thermodynamic parameters involved in the complex formation of berberine with DNA. The binding process is exothermic over the entire range and the values of enthalpy and entropy change are strongly dependent on the salt concentration. The negative enthalpy and positive entropy changes compensate one another to produce a relatively small Gibbs' free energy change. Possible molecular contribution to the enthalpy and entropy changes is discussed.

Animals↗

PubMed1993

Sensitivity of non-cooperative binding parameters of ligand-DNA complex by computer analysis.

A simple user-friendly computer programme has been developed to operate on an IBM-PC compatible machine to aid in the process of curve fitting using the McGhee and von Hippel equation [J. Mol Biol, 86 (1974), 469-489] for the analysis of ligand-DNA interactions and the experimental data on berberine-calf thymus DNA and berberine-poly(dI-dC). poly(dI-dC) for non-cooperative binding. A sensitivity analysis on binding constant (K0) and the number of binding sites (N0) show that a small variation in the latter remarkably alters the fitting curve. At a level of 1% change in N0 from the best fit value, the standard deviation grows by almost 4%, while, on the other hand, a 1% change in K0 affects the same value only by less than 0.4%.

Berberine↗

PubMed1992

Photophysical property of sanguinarine in the excited singlet state.

The photophysical property of the alkanolamine form of sanguinarine has been studied in aqueous and organic medium under various environmental conditions from the measurement of absorption, fluorescence and NMR spectroscopy. Alkanolamine fluorescence shows an excitation time dependent fluorescence quenching and the rate of quenching increases significantly with increasing pH and concentration of the species, while it decreases with increasing temperature. This phenomenon is explained by excited state intramolecular proton transfer from a 6-OH group to the lone pair of nitrogen through the formation of zwitterion.

Alkaloids↗

PubMed1992

Conformational aspects of poly(dI-dC).poly(dI-dC) and poly(dG-dC).poly(dG-dC) on binding of the alkaloid, berberine chloride.

Interaction of berberine chloride with poly(dI-dC).poly(dI-dC) and poly(dG-dC).poly(dG-dC) has been studied by various spectroscopic methods. Comparative data on binding parameters, fluorescence enhancement and Tm measurements indicate a stronger binding of berberine to the IC polymer than to the GC one. Conformational changes as monitored by circular dichroic spectra indicate change of the unusual circular dichroism of poly(IC) to a conformation similar to A-conformation, while in poly(GC) only a B-conformational change is observed. Extrinsic CD bands developed in the visible absorption region of berberine on interaction with poly(IC) are of much higher intensity compared to poly(GC). It is concluded that berberine induces a conformational change similar to the A-conformation on binding to poly(IC).

Berberine↗

PubMed1991

Base- and sequence-dependent binding of aristololactam beta-D-glucoside to deoxyribonucleic acid.

The dependence on base-pair composition and sequence specificity of the (aristololactam beta-D-glucoside)-DNA interaction was examined by spectrophotometric, spectrofluorometric, spectropolarimetric, thermal melting, thermodynamic, and viscometric studies. Binding of this alkaloid to various natural and synthetic DNAs was dependent upon the base composition and sequences of DNA. The binding parameters obtained from spectrophotometric analysis, according to an excluded-site model, indicated a relatively high affinity of the alkaloid binding to GC-rich DNA and alternating GC polymer. This affinity was further evidenced by the quenching of fluorescence intensity, decrease in quantum yield, and perturbations in circular dichroic spectrum. The alkaloid stabilized all DNAs against thermal denaturation. The temperature dependence of the binding constants was used to estimate the thermodynamic parameters involved in the complex formation of the alkaloid with various DNAs. The negative enthalpy and entropy change increased with increasing GC content of DNA and also compensated one another to produce a relatively small Gibbs free energy change. Viscometric studies showed that in the strong binding region the increase of contour length of DNA depended strongly on its base composition and sequence of bases, being larger for GC-rich DNA and alternating GC polymer. On the basis of these observations, it is concluded that the alkaloid binds to DNA by a mechanism of intercalation and exhibits considerable specificity toward alternating GC polymer.

Alkaloids↗

PubMed1991

Circular dichroism studies of the structure of DNA complex with berberine.

The binding of the benzodioxolo-benzoquinolizine alkaloid, berberine chloride to natural and synthetic DNAs has been studied by intrinsic and extrinsic circular dichroic measurements. Binding of berberine causes changes in the circular dichroism spectrum of DNA as shown by the increase of molar ellipticity of the 270nm band, but with very little change of the 240nm band. The molar ellipticity at the saturation depends strongly on the base composition of DNA and also on salt concentration, but always larger for the AT rich DNA than the GC rich DNA. The features in the circular dichroic spectral changes of berberine-synthetic DNA complexes were similar to that of native DNA, but depends on the sequence of base pairs. On binding to DNA and polynucleotides, the alkaloid becomes optically active. The extrinsic circular dichroism developed in the visible absorption region (300-500nm) for the berberine-DNA complexes shows two broad spectral bands in the regions 425-440nm and 340-360nm with the maximum varying depending on base composition and sequence of DNA. While the 425nm band shows less variation on the binding ratio, the 360nm band is remarkably dependent on the DNA/alkaloid ratio. The generation of the alkaloid associated extrinsic circular dichroic bands is not dependent on the base composition or sequence of base pairs, but the nature and magnitude of the bands are very much dependent on these two factors and also on the salt concentration. The interpretation of the results with respect to the modes of the alkaloid binding to DNA are presented.

Animals↗