Showing papers in "Biophysical Chemistry in 2005"
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TL;DR: Dynamic equations for the thermodynamic quantities are presented in terms of the key observables of a biochemical network: stoichiometric matrix Q, reaction fluxes J, and chemical potentials of species mu without evoking empirical rate laws.
222 citations
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TL;DR: The variations in the electrochemical and spectral characteristics of MTX indicated MTX bind to DNA by an intercalative mode, and Raman data suggested only a portion of the chromophore ofMTX was involved in the intercalation into DNA duplex.
218 citations
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TL;DR: Isothermal titration calorimetry (ITC) exhibits some important advantages for characterizing intermolecular interactions and binding equilibria and is expected to play a very prominent role in the next years in the areas of rational drug design and protein network regulation.
216 citations
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TL;DR: The possible contributions of other interactions to the heat capacity changes to be expected for cooperative biomolecular folding and binding processes are re-evaluate, with particular reference to the role of hydrogen bonding and solvent water interactions.
204 citations
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TL;DR: Numerical results that include non-electrostatic ion-specific forces acting that are ignored in classical electrolyte and double layer theory are given here for model calculations of the force between two model charge-regulated hen-egg-white protein surfaces.
197 citations
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TL;DR: Escherichia coli adhesion on the Ni--P--PTFE coatings with various surface energies was investigated and the extended DLVO theory was used to calculate the interaction energy between bacteria and the substrates in water.
141 citations
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TL;DR: The obtained data indicate a well-defined interconversion between quaternary, ternary and secondary structures, together with conformational rearrangements driven by hydrophobic interactions and intermolecular bonds.
111 citations
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TL;DR: It is demonstrated that in the presence of H(2)O(2), HbA(1c) degrades DNA and protein more efficiently than Hb a(0) and formation of carbonyl content, an index of oxidative stress, is higher by H bA( 1c).
111 citations
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TL;DR: In this article, the effects of K(+), Na(+) ions and their mixture on the conformational transition and macroscopic gel properties of kappa-Carrageenan system have been studied using different experimental techniques.
107 citations
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TL;DR: Thermal denaturation curves of lysozyme and ribonuclease-A and measurements of the far- and near-UV CD spectra suggested that secondary and tertiary structures of both proteins in their native and denatured states are not perturbed on the addition of polyols.
96 citations
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TL;DR: A study of composition found that increasing chitosan concentration increased the amount of polymer-rich phase present in the gel, and that the smallest aggregates decreased in size.
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TL;DR: The statistical analysis of the spectra from immobilised samples seems to indicate dynamical processes involving the reorientational of the heme with respect to the metal surface, consistent with the approaching of single molecule regime.
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TL;DR: It is suggested that the discovered variations in propensity to destabilize phospholipid bilayers between the peptides investigated, in some cases sufficient to induce fusion, may be related to their different cellular uptake properties.
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TL;DR: The results show that second-order reactions of any simple type may be accurately described by a quotient of exponential functions.
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TL;DR: The interaction of neutral red (NR) with calf thymus DNA (CT DNA) was investigated by spectrometric and voltammetric techniques and it was shown that the interaction of NR with DNA depended on the values of R (R is defined as the ratio of the concentration of NR to that of CT DNA) and pH of the solution.
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TL;DR: Data obtained by isothermal titration calorimetry and drug partition chromatography indicate that the bilayer disks may serve as an attractive and sometimes superior alternative to liposomes in studies aiming at the investigation of drug-membrane interactions.
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TL;DR: Melting temperatures collected from published sources, which were analyzed using different methods, can be corrected for discrepancies and compared on equal footing, and a set of general equations that can be used to reconcile these analytical T(m) differences are presented.
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TL;DR: There is evidence that "in vitro" simple exposure of an aqueous solution of electric eel acetylcholinesterase to cellular phone emission alters its enzymatic activity, and radio frequency radiations irreversibly affect the structural and biochemical characteristics of an important CNS enzyme.
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TL;DR: In this paper, the LMC complexity, an indicator of complexity based on a probabilistic description, is revisited, and a straightforward approach allows us to establish the time evolution of this indicator in a near-equilibrium situation and gives us a new insight for interpreting the lmc complexity for a general non equilibrium system.
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TL;DR: Excimer-to-monomer fluorescence intensity ratio has been found to reduce on lysozyme association with lipids, interpreted as indicating decrease in the membrane free volume on formation of both electrostatic and hydrophobic protein-lipid contacts.
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TL;DR: Electron spin resonance (ESR) spectroscopy with nitroxide spin probes was used as a method to probe the liposome microenvironments and to determine the modifications in membrane microviscosity induced by 2,6-diisopropyl phenol (propofol; PPF), an anaesthetic agent extensively used in clinical practice.
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TL;DR: It is concluded that the hydrogen production by hydrogenase 3 is coupled to formate-dependent proton pumping that regulates 2H(+)-K(+) exchange in fermenting bacteria.
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TL;DR: It is shown that neither a direct activation of ATP usage alone nor a directactivation of both ATP usage and substrate dehydrogenation, including the calcium-activated tricarboxylate acid cycle dehydrogenases, can account for the constancy of [ADP], [PCr], [P(i)] and [NADH] during a significant increase in oxygen consumption and ATP turnover encountered in intact heart in vivo.
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TL;DR: It is proposed that this "transient site" in the lipid milieu exists also in biological membranes, where it can modulates the access of the uncharged LA species to its site(s) of action in the voltage-gated sodium channel.
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TL;DR: It is possible to conclude that some of the quinolones associate preferably with the protein than with simpler biomembrane models (liposomes), which suggests that an interaction drug/porin is, probably, the preferentially used for the latest fluoroquinolones.
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TL;DR: Helicobacter pylori flavodoxin presents a peculiar cofactor (FMN) binding site, compared to other known flavodoxins, where a conserved aromatic residue is replaced by alanine and benzylamine binds in the pocket near the FMN binding site.
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TL;DR: A novel method for ab-initio prediction of protein tertiary structures based on the fragment assembly and global optimization is proposed, which optimize the linear parameters of the energy function, so that the native-like conformations become energetically more favorable than the non-native ones for proteins with known structures.
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TL;DR: Comparing the folding data recently obtained on apoflavodoxin from Azotobacter vinelandii with those available on all three alpha-beta parallel proteins the kinetic folding mechanism of which has been studied, Apparently, protein topology governs the appearance and kinetic roles of protein folding intermediates during the folding of proteins that have a flavodoxin-like fold.
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TL;DR: UV-VIS and reflection absorption infrared (RAIR) spectroscopy suggests that Hb retains its near-native structure in clay-(Hb/PSS)(n) films, indicating the better electrochemical reversibility of Hb in these nanocluster films.
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TL;DR: This article used FT-IR spectroscopy to characterize the α-helix-to-β-sheet conformational transition that accompanies the aggregation of single and mixed enantiomers of polylysine.