Confinement as a determinant of macromolecular structure and reactivity. II. Effects of weakly attractive interactions between confined macrosolutes and confining structures.

abstract：:The adsorption of hydrophobic ions such as tetraphenylborate to thin lipid membranes is known to saturate at approximately 0.1 ion/(nm)2. This saturation can be quantitatively explained by electrostatic repulsion between the ions if they are treated as discrete, mobile particles that adsorb within the lipid at least p...

journal_title：Biophysical journal

authors： Tsien RY,Hladky SB

更新日期：1982-07-01 00:00:00

abstract：:Concentrated solutions of bovine beta-lactoglobulin were studied using osmotic stress and rheological techniques. At pH 6.0 and 8.0, the osmotic pressure was largely independent of NaCl concentration and could be described by a hard sphere equation of state. At pH 5.1, close to the isoelectric point, the osmotic press...

journal_title：Biophysical journal

authors： Parker R,Noel TR,Brownsey GJ,Laos K,Ring SG

更新日期：2005-08-01 00:00:00

abstract：:Deuterium magnetic resonance is applied to the study of the liquid crystalline and gel phases, and of the phase transition, of a multilamellar dispersion of chain perdeuterated (d62)-dipalmitoyl phosphatidylcholine/H2O. Analysis of the deuterium spectra in terms of the moments of the spectra allows one to make quantit...

journal_title：Biophysical journal

authors： Davis JH

更新日期：1979-09-01 00:00:00

abstract：:DNA release from lipoplexes is an essential step during lipofection and is probably a result of charge neutralization by cellular anionic lipids. As a model system to test this possibility, fluorescence resonance energy transfer between DNA and lipid covalently labeled with Cy3 and BODIPY, respectively, was used to mo...

journal_title：Biophysical journal

authors： Tarahovsky YS,Koynova R,MacDonald RC

更新日期：2004-08-01 00:00:00

abstract：:Diacylglycerol kinase ε (DGKε) is a membrane-bound enzyme that catalyzes the ATP-dependent phosphorylation of diacylglycerol to form phosphatidic acid (PA) in the phosphatidylinositol cycle. DGKε lacks a putative regulatory domain and has recently been reported to be regulated by highly curved membranes. To further st...

journal_title：Biophysical journal

authors： Bozelli JC Jr,Yune J,Hou YH,Chatha P,Fernandes A,Cao Z,Tong Y,Epand RM

更新日期：2020-02-25 00:00:00

abstract：:We have analyzed repellent signal processing in Escherichia coli by flash photorelease of leucine from photolabile precursors. We found that 1). response amplitudes of free-swimming cell populations increased with leucine jump concentration, with an apparent Hill coefficient of 1.3 and a half-maximal dose of 14.4 micr...

journal_title：Biophysical journal

authors： Khan S,Jain S,Reid GP,Trentham DR

更新日期：2004-06-01 00:00:00

abstract：:In this work we have designed a simple system to investigate empirically the image contrast of tapping-mode atomic force microscopy (TMAFM). We modified the cantilever tips with protein molecules (bovine serum albumin or goat anti-biotin antibody) and used these protein-modified cantilevers to scan poly-L-lysine films...

journal_title：Biophysical journal

authors： You H,Yu L

更新日期：1997-12-01 00:00:00

abstract：:Open channel properties of canine cardiac Purkinje cell Na+ channels were studied with single channel cell-attached recording and with whole cell macroscopic current recording in internally perfused cells. Single channel currents and membrane currents increased with an increase in Na+ concentration, but showed evidenc...

journal_title：Biophysical journal

authors： Sheets MF,Scanley BE,Hanck DA,Makielski JC,Fozzard HA

更新日期：1987-07-01 00:00:00

abstract：:Investigations into the spatiotemporal dynamics of DNA repair using live-cell imaging are aided by the ability to generate well defined regions of ultravioletlike photolesions in an optical microscope. We demonstrate that multiphoton excitation of DNA in live cells with visible femtosecond pulses produces thymine cycl...

journal_title：Biophysical journal

authors： Daddysman MK,Fecko CJ

更新日期：2011-11-02 00:00:00

abstract：:The investigation of the mechanism of protein folding is complicated by the context dependence of the rates of intramolecular contact formation. Methods based on site-specific labeling and ultrafast spectroscopic detection of fluorescence signals were developed for monitoring the rates of individual subdomain folding ...

journal_title：Biophysical journal

authors： Rahamim G,Amir D,Haas E

更新日期：2017-05-09 00:00:00

abstract：:Molecular dynamics simulations are presented for a Thermus aquaticus (Taq) DNA polymerase I complex (consisting of the protein, the primer-template DNA strands, and the incoming nucleotide) subjected to external forces. The results obtained with a force applied to the DNA template strand provide insights into the effe...

journal_title：Biophysical journal

authors： Andricioaei I,Goel A,Herschbach D,Karplus M

更新日期：2004-09-01 00:00:00

abstract：:In voltage-clamped frog skeletal muscle fibers, Ca(2+) release rises rapidly to a peak, then decays to a nearly steady state. The voltage dependence of the ratio of amplitudes of these two phases (p/s) shows a maximum at low voltages and declines with further depolarization. The peak phase has been attributed to a com...

journal_title：Biophysical journal

authors： Brum G,Piriz N,DeArmas R,Rios E,Stern M,Pizarro G

更新日期：2003-07-01 00:00:00

abstract：:Mathematical models are increasingly important in biology, and testability is becoming a critical issue. One limitation is that one model simulation tests a parameter set representing one instance of the biological counterpart, whereas biological systems are heterogeneous in their properties and behavior, and a model ...

journal_title：Biophysical journal

authors： Tomaiuolo M,Bertram R,Leng G,Tabak J

更新日期：2012-11-07 00:00:00

abstract：:Collagenase H (ColH) from Clostridium histolyticum is a multimodular protein composed of a collagenase module (activator and peptidase domains), two polycystic kidney disease-like domains, and a collagen-binding domain. The interdomain conformation and its changes are very important for understanding the functions of ...

journal_title：Biophysical journal

authors： Ohbayashi N,Matsumoto T,Shima H,Goto M,Watanabe K,Yamano A,Katoh Y,Igarashi K,Yamagata Y,Murayama K

更新日期：2013-04-02 00:00:00

abstract：:The (31)P-nuclear magnetic resonance chemical shift of phosphatidic acid in a membrane is sensitive to the lipid head group packing and can report qualitatively on membrane lateral compression near the aqueous interface. We have used high-resolution (31)P-nuclear magnetic resonance to evaluate the lateral compression ...

journal_title：Biophysical journal

authors： Traïkia M,Warschawski DE,Lambert O,Rigaud JL,Devaux PF

更新日期：2002-09-01 00:00:00

abstract：:The motility of Amoeba proteus was examined using the technique of passive particle tracking microrheology, with the aid of newly developed particle tracking software, a fast digital camera, and an optical microscope. We tracked large numbers of endogeneous particles in the amoebae, which displayed subdiffusive motion...

journal_title：Biophysical journal

authors： Rogers SS,Waigh TA,Lu JR

更新日期：2008-04-15 00:00:00

abstract：:A new Fourier series representation of supercoiled DNA is employed in Langevin dynamics simulations to study large-scale configurational motions of intermediate-length chains. The polymer is modeled as an ideal elastic rod subject to long-range van der Waals' interactions. The van der Waals' term prevents the self-con...

journal_title：Biophysical journal

authors： Liu G,Schlick T,Olson AJ,Olson WK

更新日期：1997-10-01 00:00:00

abstract：:The effect of cross-bridge clustering and head-head competition on the mechanical response of skeletal muscle under equilibrium conditions is considered. For this purpose, the recent multiple site equilibrium cross-bridge model of Schoenberg (Schoenberg, M., 1985, Biophys. J., 48:467-475) is extended in accordance wit...

journal_title：Biophysical journal

authors： Tözeren A,Schoenberg M

更新日期：1986-11-01 00:00:00

abstract：:Global analysis techniques are described for frequency domain fluorescence lifetime imaging microscopy (FLIM) data. These algorithms exploit the prior knowledge that only a limited number of fluorescent molecule species whose lifetimes do not vary spatially are present in the sample. Two approaches to implementing the...

journal_title：Biophysical journal

authors： Verveer PJ,Squire A,Bastiaens PI

更新日期：2000-04-01 00:00:00

abstract：:The 77-K resonance Raman vibrational spectrum of intact goldfish rod photoreceptors containing 3,4-dehydro (A2) retinal is dominated by scattering from the 9-cis component of the steady state at all excitation wavelengths. Intact goldfish photoreceptors were regenerated with an A1-retinal chromophore to determine whet...

journal_title：Biophysical journal

authors： Barry B,Mathies RA,Pardoen JA,Lugtenburg J

更新日期：1987-10-01 00:00:00

abstract：:The prediction of absolute ligand-receptor binding affinities is essential in a wide range of biophysical queries, from the study of protein-protein interactions to structure-based drug design. End-point free energy methods, such as the Molecular Mechanics Poisson-Boltzmann Surface Area (MM/PBSA) model, have received ...

journal_title：Biophysical journal

authors： Swanson JM,Henchman RH,McCammon JA

更新日期：2004-01-01 00:00:00

abstract：:A simple theoretical analysis shows that specificity of double-stranded DNA (dsDNA) targeting by homopyrimidine peptide nucleic acids (hpyPNAs) is a kinetically controlled phenomenon. Our computations give the optimum conditions for sequence-specific targeting of dsDNA by hpyPNAs. The analysis shows that, in agreement...

journal_title：Biophysical journal

authors： Demidov VV,Yavnilovich MV,Frank-Kamenetskii MD

更新日期：1997-06-01 00:00:00

abstract：:Molecular dynamics simulations in simplified models allow one to study the scaling properties of folding times for many proteins together under a controlled setting. We consider three variants of the Go models with different contact potentials and demonstrate scaling described by power laws and no correlation with the...

journal_title：Biophysical journal

authors： Cieplak M,Hoang TX

更新日期：2003-01-01 00:00:00

abstract：:Cell adhesion often occurs under dynamic conditions, as in flowing blood. A quantitative understanding of this process requires accurate knowledge of the topographical relationships between the cell membrane and potentially adhesive surfaces. This report describes an experimental study made on both the translational a...

journal_title：Biophysical journal

authors： Tissot O,Pierres A,Foa C,Delaage M,Bongrand P

更新日期：1992-01-01 00:00:00

abstract：:The ability to accurately predict RNA hairpin structure and stability for different loop sequences and salt conditions is important for understanding, modeling, and designing larger RNA folds. However, traditional RNA secondary structure models cannot treat loop-sequence and ionic effects on RNA hairpin folding. Here,...

journal_title：Biophysical journal

authors： Zhao C,Zhang D,Jiang Y,Chen SJ

更新日期：2020-10-06 00:00:00

abstract：:The interaction of α-helical peptides with lipid bilayers is central to our understanding of the physicochemical principles of biological membrane organization and stability. Mutations that alter the position or orientation of an α-helix within a membrane, or that change the probability that the α-helix will insert in...

journal_title：Biophysical journal

authors： Hall BA,Chetwynd AP,Sansom MS

更新日期：2011-04-20 00:00:00

abstract：:The effects of cholesterol (Chol) on phospholipid bilayers include ordering of the fatty acyl chains, condensing of the lipids in the bilayer plane, and promotion of the liquid-ordered phase. These effects depend on the type of phospholipids in the bilayer and are determined by the nature of the underlying molecular i...

journal_title：Biophysical journal

authors： Aittoniemi J,Niemelä PS,Hyvönen MT,Karttunen M,Vattulainen I

更新日期：2007-02-15 00:00:00

abstract：:Chromatin is partitioned on multiple length scales into subcompartments that differ from each other with respect to their molecular composition and biological function. It is a key question how these compartments can form even though diffusion constantly mixes the nuclear interior and rapidly balances concentration gr...

journal_title：Biophysical journal

authors： Erdel F,Rippe K

更新日期：2018-05-22 00:00:00

abstract：:Recent studies suggest that phosphoinositide kinases may participate in intracellular trafficking or exocytotic events. Because both of these events ultimately require fusion of biological membranes, the susceptibility of membranes containing polyphosphoinositides (PPIs) to divalent cation-induced fusion was investiga...

journal_title：Biophysical journal

authors： Summers SA,Guebert BA,Shanahan MF

更新日期：1996-12-01 00:00:00

abstract：:Toward quantitative description of protein aggregation, we develop a computationally efficient method to evaluate the potential of mean force between two folded protein molecules that allows for complete sampling of their mutual orientation. Our model is valid at moderate ionic strengths and accounts for the actual ch...

journal_title：Biophysical journal

authors： Chan HY,Lankevich V,Vekilov PG,Lubchenko V

更新日期：2012-04-18 00:00:00