Structure-dependent of 3-fluorooxindole derivatives interacting with ctDNA: Binding effects and molecular docking approaches.

3-Fluorooxindole has been shown to be a biologically active structural unit, novel derivative containing 3-fluorooxindole unit has been successfully constructed using 3-fluorooxindole as a substrate in previous work. Here, the interactions between novel 3-fluorooxindole derivatives and ctDNA were explored through molecular docking, multi-spectral and NMR methods, and the dependence of the binding mechanism on the structure was revealed by combined physical chemistry and organic chemistry. Firstly, molecular docking indicated that the planarity of the molecule enhances the binding strength to ctDNA. UV absorption result showed a weak binding effect. Fluorescence spectroscopy suggested the binding mechanism of 3-fluorooxindoles and ctDNA via groove binding. Moreover, the binding mechanism of 3-fluorooxindoles to ctDNA was further confirmed by 1H NMR spectroscopy, viscometry, and CD spectroscopy as groove binding. FT-IR spectroscopy reflected a more obvious disturbance of the phosphate group in the groove region of ctDNA. Electrochemistry was also used to probe the binding strength of 3-fluorooxindoles to ctDNA, and it showed a weak binding strength. From the above study, we concluded that 3-fluorooxindoles bind mainly in the groove region of ctDNA with weak binding strength. This study provides an idea for the activity screening aspect of 3-fluorooxindole derivatives from molecular planarity consideration and relevant information on biophysical and bioorganic aspects for drug development.

Preparation of graphene quantum dots with glycine as nitrogen source and its interaction with human serum albumin.

Graphene quantum dots (GQDs) could be regarded as graphene with a lateral dimension less than 100 nm. Compared with graphene, GQDs not only possess the excellent properties of graphene but also have been proven to have low toxicity, high fluorescence stability, strong water solubility, as well as better biocompatibility. In this work, an amide bond-based, N-doped graphene quantum dot was synthesized using a simple hydrothermal method. When the reaction time was 4 h and the temperature was 180°C, fluorescence excitation and emission peaks of the product were 340 nm and 450 nm, respectively. Its interaction with human serum albumin (HSA) was investigated using spectroscopy, gel electrophoresis, and molecular simulation. Gel electrophoresis showed that the product did not cause complete scission of the peptide chain in HSA, indicating good biocompatibility. The results of molecular docking showed that the product tended to bind to site III of HSA. This paper provides a meaningful reference for design and development in nanomedicine.

A sensitive fluorescent sensor based on the photoinduced electron transfer mechanism for cefixime and ctDNA.

Cefixime is a third generation orally administered cephalosporin that is frequently used as a broad spectrum antibiotic against various gram-negative and gram-positive bacteria. In this study, a simple and sensitive fluorescent sensor for the determination of the cefixime and ctDNA was established based on the CdTe:Zn2+ quantum dots (QDs). The fluorescence of CdTe:Zn2+ QDs can be effectively quenched by cefixime in virtue of the surface binding of cefixime on CdTe:Zn2+ QDs and the subsequent photoinduced electron transfer process from CdTe:Zn2+ QDs to cefixime, in particular, the high sensitivity of QDs fluorescence emission to cefixime at the micromole per liter level, which render the cefixime-CdTe:Zn2+ QDs system into fluorescence "OFF" status, then turn on in the presence of ctDNA. Furthermore, the Fourier transform infrared (FTIR) spectra of characteristic bands of C-N and N-H groups of cefixime endow evidence for the interaction of cefixime with CdTe:Zn2+ QDs. The relative electrochemical behavior of the affinity of CdTe:Zn2+ QDs for cefixime and ctDNA reveals the potential molecular binding mechanism.

Probing the interaction of cephalosporin with bovine serum albumin: A structural and comparative perspective.

Cephalosporins belong the largest class of antibiotics used in the treatment of a wide range of infectious diseases caused by susceptible organisms. In the present study, we chose two typical antibiotics cefalexin/cefixime based on their structure, and investigated the interaction of cephalexin/cefixime with bovine serum albumin (BSA) using UV-vis absorption spectra, fluorescence spectroscopy, circular dichroism (CD) spectroscopy and molecular modeling approaches. Spectroscopic experiments revealed the formation of a BSA - cefalexin/cefixime complex. The binding parameters calculated using a modified Stern - Volmer method and the Scatchard method reached 103 -104  L·mol-1 . Thermodynamic parameter studies revealed that binding characteristics by negative enthalpy and positive entropy changes, and electrostatic interactions play a major role. Site marker competitive displacement experiments and molecular modeling approaches demonstrated that cefalexin and cefixime bind with appropriate affinity to site I (subdomain IIA) of BSA. Furthermore, synchronous fluorescence spectra, CD spectra and molecular modeling results indicated that the secondary structure of BSA was changed in the presence of cefalexin and cefixime. Additionally, the effects of metal ions on the BSA - cefalexin/cefixime system were also assessed.

Insights into the interaction of methotrexate and human serum albumin: A spectroscopic and molecular modeling approach.

In this study, fluorescence spectroscopy and molecular modeling approaches were employed to investigate the binding of methotrexate to human serum albumin (HSA) under physiological conditions. From the mechanism, it was demonstrated that fluorescence quenching of HSA by methotrexate results from the formation of a methotrexate/HSA complex. Binding parameters calculated using the Stern-Volmer method and the Scatchard method showed that methotrexate binds to HSA with binding affinities in the order 104  L·mol-1 . Thermodynamic parameter studies revealed that the binding reaction is spontaneous, and that hydrogen bonds and van der Waals interactions play a major role in the reaction. Site marker competitive displacement experiments and a molecular modeling approach demonstrated that methotrexate binds with appropriate affinity to site I (subdomain IIA) of HSA. Furthermore, we discuss some factors that influence methotrexate binding to HSA.

Revealing the effects of ligands of silver nanoclusters on the interactions between them and ctDNA: Abstraction to visualization.

Silver nanoclusters (AgNCs) have been widely applied in the field of biology, drug therapy and cell imaging in the last decade. In order to study the biosafety of AgNCs, GSH-AgNCs and DHLA-AgNCs were synthesized using glutathione (GSH) and dihydrolipoic acid (DHLA) as ligands, and their interactions with calf thymus DNA (ctDNA) from abstraction to visualization were studied. The results of spectroscopy, viscometry and molecular docking demonstrated that GSH-AgNCs mainly bound to ctDNA in a groove mode, while DHLA-AgNCs were both groove and intercalation binding. Fluorescence experiments suggested that the quenching mechanism of both AgNCs to the emission of ctDNA-probe were both in static mode, and thermodynamic parameters demonstrated that the main forces between GSH-AgNCs and ctDNA were hydrogen bonds and van der Waals forces, while hydrogen bonds and hydrophobic forces contributed to the binding of DHLA-AgNCs to ctDNA. The binding strength demonstrated that DHLA-AgNCs bound to ctDNA more strongly than that of GSH-AgNCs. The results of circular dichroism (CD) spectroscopy reflected small effects of both AgNCs on the structure of ctDNA. This study will support the theoretical foundation for the biosafety of AgNCs and have a guiding significance for the preparation and application of AgNCs.

The specific binding of chlorogenic acid to human serum albumin.

Chlorogenic acid (CGA) is one of the most abundant polyphenol compounds in human diet. It is also an active component in traditional Chinese medicines which are used to treat various diseases. In this study, fluorescence spectroscopy in combination with UV-Vis absorption spectroscopy was employed to investigate the specific binding of CGA to human serum albumin (HSA) under the physiological conditions. In the mechanism discussion, it was proved that the fluorescence quenching of HSA by CGA is a result of the formation of CGA-HSA complex. Binding parameters calculating from Stern-Volmer method and Scatchard method showed that CGA bind to HSA with the binding affinities of the order 10(4) l mol(-1). The thermodynamic parameters studies revealed that the binding was characterized by negative enthalpy and positive entropy changes and the electrostatic interactions play a major role for CGA-HSA association. Site marker competitive displacement experiments demonstrated that CGA specific bind to site I (subdomain IIA) of HSA. The binding distance r (3.10 nm) between donor (Trp-214) and acceptor (CGA) was obtained according to fluorescence resonance energy transfer. Furthermore, the effect of metal ions on CGA-HSA system was studied.

Insights into the interaction of human serum albumin and carbon dots: Hydrothermal synthesis and biophysical study.

Nitrogen and sulfur co-doped carbon dots (N,S-CDs) have been widely studied with high quantum yield (QY). The experimental conditions of three different N,S-CDs were optimized. Emission peak position of three different N,S-CDs shown almost remains unchanged or obvious excitation-dependent PL properties, that was likely owed to size distribution. In order to discuss the N,S-CDs stability of photoluminescence property in environment, various experiments such as the photostability, different pH, ionic strengths and temperature were designed. To sum up, three different N,S-CDs exhibited discrepancy property. Molecular interaction of three different N,S-CDs were produced via vary carbon source with human serum albumins have been investigate by various methods. The quenching mechanism, thermodynamic and kinetic parameters, binding sites, electrochemical behavior of three different N,S-CDs with human serum albumins have some different, but conformational change of three different N,S-CDs with human serum albumins alike. The molecular docking had successful applied to study the N,S-CDs interaction with HSA. Different N,S-CDs possessed various characteristic that will have different quenching mechanism when they interaction with human serum albumin, study the mechanism of action at molecular level will help people to choose suitable CDs to apply in nanomedical.

Effect of berberine hydrochloride-functionalized gold nanoparticles on calf thymus DNA: a biophysical study.

Communicated by Ramaswamy H. Sarma.

Binding of anti-inflammatory drug cromolyn sodium to bovine serum albumin.

Fluorescence spectroscopy in combination with circular dichroism (CD) and UV-vis absorption spectroscopy were employed to investigate the binding of anti-inflammatory drug cromolyn sodium (Intal) to bovine serum albumin (BSA) under the physiological conditions with Intal concentrations of 0-6.4 x 10(-5)mol L(-1). In the mechanism discussion, it was proved that the fluorescence quenching of BSA by Intal is a result of the formation of Intal-BSA complex. Quenching constants were determined using the Stern-Volmer equation to provide a measure of the binding affinity between Intal and BSA. The thermodynamic parameters Delta G, Delta H, Delta S at different temperatures (298, 304, and 310 K) were calculated and the results indicate the electrostatic interactions play a major role in Intal-BSA association. Binding studies concerning the number of binding sites (n=1) and apparent binding constant K(b) were performed by fluorescence quenching method. Utilizing fluorescence resonant energy transfer (FRET) the distance R between the donor (BSA) and acceptor (Intal) has been obtained. Furthermore, CD and synchronous fluorescence spectrum were used to investigate the structural change of BSA molecules with addition of Intal, the results indicate that the secondary structure of BSA molecules was changed in the presence of Intal.

Preparation of SO4(2-)/TiO2-La2O3 solid superacid and its catalytic activities in acetalation and ketalation.

SO(4)(2-)/TiO(2)-La(2)O(3), a novel solid superacid, was prepared and its catalytic activities at different synthetic conditions are discussed with esterification of n-butanoic acid and n-butyl alcohol as probing reaction. The optimum conditions have also been found, mole ratio of n(La(3+)):n(Ti(4+)) is 1:34, the soaked consistency of H(2)SO(4) is 0.8 mol/L, the soaked time of H(2)SO(4) is 24 h, the calcining temperature is 480 degrees C, the calcining time is 3 h. Then it was applied in the catalytic synthesis of ten important ketals and acetals as catalyst and revealed high catalytic activity. Under these conditions on which the molar ratio of aldehyde/ketone to glycol is 1:1.5, the mass ratio of the catalyst used in the reactants is 0.5%, and the reaction time is 1.0 h, the yields of ketals and acetals can reach 41.4%-95.8%.

Novel rare earth tungstoarsenate heteropolyoxometalates K11[Ln(AsW 11O 39) 2]·xH 2O (Ln = La, Nd, Sm) binding to bovine serum albumin: spectroscopic approach.

The rare earth salts of heteropoly have been widely applied in many fields. In this study, the biological activity of rare earth tungstoarsenate heteropolyoxometalates K11[Ln(AsW11O39)2]·xH2O (abbr. LnW11, Ln = La (x = 24), Nd (x = 17), and Sm (x = 19)) were investigated by spectroscopic methods including fluorescence spectroscopy and UV-vis absorption spectroscopy at different temperatures. In the mechanism discussion, it was proved that the fluorescence quenching of bovine serum albumin (BSA) by LnW11 is initiated by complex formation. The thermodynamic parameters suggested that the binding of LnW11 to BSA is spontaneous, and the mainly force is electrostatic interactions. Site marker competitive experiments demonstrated that LaW11 binds with high affinity to site I (subdomain IIA) of BSA; but SmW11 and NdW11 bind with affinity to both site I (subdomain IIA) and site II (subdomain IIIA) of BSA. The results of synchronous fluorescence spectrum indicate that the secondary structure of BSA molecules was changed in the presence of LnW11. In addition, the binding parameters, binding site number, and effect of metal ions on LnW11-BSA were also discussed.

Exploring the site-selective binding of jatrorrhizine to human serum albumin: spectroscopic and molecular modeling approaches.

This paper exploring the site-selective binding of jatrorrhizine to human serum albumin (HSA) under physiological conditions (pH=7.4). The investigation was carried out using fluorescence spectroscopy, UV-vis spectroscopy, and molecular modeling. The results of fluorescence quenching and UV-vis absorption spectra experiments indicated the formation of the complex of HSA-jatrorrhizine. Binding parameters calculating from Stern-Volmer method and Scatchard method were calculated at 298, 304 and 310 K, with the corresponding thermodynamic parameters ΔG, ΔH and ΔS as well. Binding parameters calculating from Stern-Volmer method and Scatchard method showed that jatrorrhizine bind to HSA with the binding affinities of the order 10(4) L mol(-1). The thermodynamic parameters studies revealed that the binding was characterized by negative enthalpy and positive entropy changes and the electrostatic interactions play a major role for jatrorrhizine-HSA association. Site marker competitive displacement experiments and molecular modeling calculation demonstrating that jatrorrhizine is mainly located within the hydrophobic pocket of the subdomain IIIA of HSA. Furthermore, the synchronous fluorescence spectra suggested that the association between jatrorrhizine and HSA changed molecular conformation of HSA.

Green synthesis and physical characterization of Au nanoparticles and their interaction with bovine serum albumin.

In this study, we used morin as a reducing agent for the synthesis of stable and nearly spherical Au nanoparticles (M-AuNPs), which were characterized by UV-vis, transmission electron microscopy (TEM) and X-ray diffraction (XRD). The binding characteristics and molecular mechanism of the interaction between the M-AuNPs and bovine serum albumin (BSA) were explored by UV-vis absorbance, fluorescence spectroscopy, and circular dichroism spectra (CD). The results showed that the quenching mechanisms were based on static quenching. The thermodynamic parameters ΔG, ΔH and ΔS, suggested that the reaction was spontaneous, and mainly driven by electrostatic interactions. Site marker competitive displacement experiments indicated that MAuNPs bound with high affinity to site I (subdomain IIA) of BSA. Synchronous fluorescence and CD spectra demonstrated that BSA conformation was slightly altered in the presence of M-AuNPs. In addition, the effect of pH, temperature, morin quantity, and reaction time were investigated.

Lanthanide salts of heteropoly molybdotungstosilicate LnHSiMo10W2O40·xH2O (Ln = Pr, Nd, Sm, Gd, Tb, Dy, Yb) binding to bovine serum albumin: a fluorescence quenching study.

In the present work, the interaction between a series of novel lanthanide salts of heteropoly molybdotungstosilicate LnHSiMo(10)W(2)O(40)·xH(2)O (LnW(2); Ln = Pr (x = 23), Nd (x = 24), Sm (x = 26), Gd (x = 20), Tb (x = 23), Dy (x = 21), Yb (x = 25)), and bovine serum albumin (BSA) was investigated by spectroscopic approach at different temperatures under imitated physiological conditions. In the mechanism discussion, it was proved that the fluorescence quenching of BSA by LnW(2) is a result of the formation of LnW(2)-BSA complex. Binding affinity between LnW(2) and BSA was determined using Scatchard equation and the modified Stern-Volmer equation, and the corresponding electronic structure-affinity relationship were discussed. The results of thermodynamic parameters ∆G, ∆H, ∆S at different temperatures indicate that the electrostatic interactions play a major role in LnW(2)-BSA binding process. Moreover, the enthalpy change (∆H) and entropy change (∆S) were in accordance with the "enthalpy-entropy compensation" equation obtained from this and previous work. Furthermore, the distance r between donor (BSA) and acceptor (LnW(2)) was obtained according to fluorescence resonance energy transfer.

A series of novel rare Earth molybdotungstosilicate heteropolyoxometalates binding to bovine serum albumin: spectroscopic approach.

Heteropolyoxometalate complexes have been widely applied in many fields. In this paper, the interaction between a series of novel rare earth molybdotungstosilicate heteropolyoxometalates, K(10)H(3)[Ln(SiMo(6)W(5)O(39))(2)].xH(2)O (abbr. LnW(5), Ln = Pr (x = 30), Gd (x = 29), Dy (x = 28), and Yb (x = 31)), and bovine serum albumin (BSA) was investigated by spectroscopic approach under the physiological conditions. In the mechanism discussion, it was proved that the fluorescence quenching of BSA by LnW(5) is a result of the formation of LnW(5)-BSA complex. Fluorescence quenching constants were determined using the Stern-Volmer equation to provide a measure of the binding affinity between LnW(5) and BSA. The binding affinity ranked in the order GdW(5) > DyW(5) > PrW(5) > YbW(5). The results of thermodynamic parameters DeltaG, DeltaH, and DeltaS at different temperatures indicate that van der Waals interactions and hydrogen bonds play a major role for LnW(5)-BSA association. Furthermore, the distance r between donor (BSA) and acceptor (LnW(5)) was obtained according to fluorescence resonance energy transfer.