Monte Carlo simulations of proteins in cages: influence of confinement on the stability of intermediate states.

abstract：:The S4 transmembrane domain of the family of voltage-gated ion channels is generally thought to be the voltage sensor, whose translocation by an applied electric field produces the gating current. Experiments on hSkMI Na(+) channels and both Shaker and EAG K(+) channels indicate which S4 residues cross the membrane-so...

journal_title：Biophysical journal

authors： Lecar H,Larsson HP,Grabe M

更新日期：2003-11-01 00:00:00

abstract：:Axonal beading, or the formation of a series of swellings along the axon, and retraction are commonly observed shape transformations that precede axonal atrophy in Alzheimer's disease, Parkinson's disease, and other neurodegenerative conditions. The mechanisms driving these morphological transformations are poorly und...

journal_title：Biophysical journal

authors： Datar A,Ameeramja J,Bhat A,Srivastava R,Mishra A,Bernal R,Prost J,Callan-Jones A,Pullarkat PA

更新日期：2019-09-03 00:00:00

abstract：:Most of the important types of interactions that occur in cells can be characterized as binding-diffusion type processes, and can be quantified by kinetic rate constants such as diffusion coefficients (D) and binding rate constants (k(on) and k(off)). Confocal FRAP is a potentially important tool for the quantitative ...

journal_title：Biophysical journal

authors： Kang M,Day CA,DiBenedetto E,Kenworthy AK

更新日期：2010-11-03 00:00:00

abstract：:The structure of polyamines-DNA precipitates was studied by x-ray diffraction. Precise measurements of the interhelix distance a(H) were obtained at different NaCl, polyamine, and DNA concentrations. Most of the results were obtained using spermine and few others using spermidine. The precipitates are liquid crystalli...

journal_title：Biophysical journal

authors： Raspaud E,Durand D,Livolant F

更新日期：2005-01-01 00:00:00

abstract：:This work describes the first cell-based model of tumor-induced angiogenesis. At the extracellular level, the model describes diffusion, uptake, and decay of tumor-secreted pro-angiogenic factor. At the cellular level, the model uses the cellular Potts model based on system-energy reduction to describe endothelial cel...

journal_title：Biophysical journal

authors： Bauer AL,Jackson TL,Jiang Y

更新日期：2007-05-01 00:00:00

abstract：:We have performed molecular dynamics simulations of multiple copies of the lung-surfactant peptide SP-B1-25 in a palmitic acid (PA) monolayer. SP-B1-25 is a shorter version of lung-surfactant protein B, an important component of lung surfactant. Up to 30 ns simulations of 20 wt % SP-B1-25 in the PA monolayers were per...

journal_title：Biophysical journal

authors： Lee H,Kandasamy SK,Larson RG

更新日期：2005-12-01 00:00:00

abstract：:Hyaluronan (HA) is a highly hydrated polyanion, which is a network-forming and space-filling component in the extracellular matrix of animal tissues. Confocal fluorescence recovery after photobleaching (confocal-FRAP) was used to investigate intramolecular hydrogen bonding and electrostatic interactions in hyaluronan ...

journal_title：Biophysical journal

authors： Gribbon P,Heng BC,Hardingham TE

更新日期：1999-10-01 00:00:00

abstract：:Diacylglycerol, a biological membrane second messenger, is a strong perturber of phospholipid planar bilayers. It converts multibilayers to the reverse hexagonal phase (HII), composed of highly curved monolayers. We have used x-ray diffraction and osmotic stress of the HII phase to measure structural dimensions, spont...

journal_title：Biophysical journal

authors： Leikin S,Kozlov MM,Fuller NL,Rand RP

更新日期：1996-11-01 00:00:00

abstract：:The pore-forming alpha 1 subunit of L-type calcium (Ca2+) channels is the molecular target of Ca2+ channel blockers such as phenylalkylamines (PAAs). Association and dissociation rates of (-)devapamil were compared for a highly PAA-sensitive L-type Ca2+ channel chimera (Lh) and various class A Ca2+ channel mutants. Th...

journal_title：Biophysical journal

authors： Degtiar VE,Aczél S,Döring F,Timin EN,Berjukow S,Kimball D,Mitterdorfer J,Hering S

更新日期：1997-07-01 00:00:00

abstract：:The analysis of single-molecule fluorescence resonance energy transfer (FRET) trajectories has become one of significant biophysical interest. In deducing the transition rates between various states of a system for time-binned data, researchers have relied on simple, but often arbitrary methods of extracting rates fro...

journal_title：Biophysical journal

authors： McKinney SA,Joo C,Ha T

更新日期：2006-09-01 00:00:00

abstract：:Theoretical studies of the electronic structure and spectra of models for the ferric resting state and Compound I intermediates of horseradish peroxidase (HRP-I) and catalase (CAT-I) have been performed using the INDO-RHF/CI method. The goals of these studies were twofold: i) to determine whether the axial ligand of H...

journal_title：Biophysical journal

authors： Du P,Loew GH

更新日期：1995-01-01 00:00:00

abstract：:Green flagellates possess rhodopsin-like photoreceptors involved in control of their behavior via generation of photocurrents across the plasma membrane. Chlamydomonas mutants blocked in retinal biosynthesis are "blind," but they can be rescued by the addition of exogenous retinoids. Photosignaling by chlamyrhodopsin ...

journal_title：Biophysical journal

authors： Govorunova EG,Sineshchekov OA,Gärtner W,Chunaev AS,Hegemann P

更新日期：2001-11-01 00:00:00

abstract：:The cytoskeletal activity of motile or adherent cells is frequently seen to induce detectable displacements of sufficiently compliant substrata. The physics of this phenomenon is discussed in terms of the classical theory of small-strain, plane-stress elasticity. The main results of such analysis is a transform expres...

journal_title：Biophysical journal

authors： Dembo M,Oliver T,Ishihara A,Jacobson K

更新日期：1996-04-01 00:00:00

abstract：:A useful technique in studying the saturation of hemoglobin in erythrocytes or myoglobin in tissue is cryophotometry, in which tissue is frozen for later spectrophotometric analysis. A general question associated with this technique is whether the freezing process alters the chemical state. This paper presents a theor...

journal_title：Biophysical journal

authors： Clark A Jr,Clark PA

更新日期：1983-04-01 00:00:00

abstract：:The type 2a sarco/endoplasmic reticulum (ER) Ca2+-ATPase (SERCA2a) plays a key role in intracellular Ca2+ regulation in the heart. We have previously shown evidence of stable homodimers of SERCA2a in heterologous cells and cardiomyocytes. However, the functional significance of the pump dimerization remains unclear. H...

journal_title：Biophysical journal

authors： Bovo E,Nikolaienko R,Cleary SR,Seflova J,Kahn D,Robia SL,Zima AV

更新日期：2020-10-06 00:00:00

abstract：:A general analytical description of the equilibrium and reaction kinetics of DNA multiplex hybridization has been developed. In this approach, multiplex hybridization is considered to be a competitive multichannel reaction process: a system wherein many species can react both specifically and nonspecifically with one ...

journal_title：Biophysical journal

authors： Horne MT,Fish DJ,Benight AS

更新日期：2006-12-01 00:00:00

abstract：:Helix-coil transitions in polyalanine molecules of length 10 are studied by multi-canonical Monte Carlo simulations. The solvation effects are included by either a distance-dependent dielectric permittivity or by a term that is proportional to the solvent-accessible surface area of the peptide. We found a strong depen...

journal_title：Biophysical journal

authors： Peng Y,Hansmann UH

更新日期：2002-06-01 00:00:00

abstract：:Small angle x-ray and neutron scattering are techniques that give solution structures for large macromolecules. The creation of physically realistic atomistic models from known high-resolution structures to determine joint x-ray and neutron scattering best-fit structures offers a, to our knowledge, new method that sig...

journal_title：Biophysical journal

authors： Wright DW,Elliston ELK,Hui GK,Perkins SJ

更新日期：2019-12-03 00:00:00

abstract：:As double-stranded DNA is stretched to its B-form contour length, models of polymer elasticity can describe the dramatic increase in measured force. When the molecule is stretched beyond this contour length, it shows a highly cooperative overstretching transition. We have measured the elasticity and overstretching tra...

journal_title：Biophysical journal

authors： Wenner JR,Williams MC,Rouzina I,Bloomfield VA

更新日期：2002-06-01 00:00:00

abstract：:The impedance measured in a strip of heart tissue from the moth Hyalophora cecropia is fitted by circuit models of several configurations. The circuits include: (a) a single R-C circuit (b) a double R-C circuit (c) terminated transmission lines, and (d) a pattern of cells with cell-to-cell transmission paths. The last...

journal_title：Biophysical journal

authors： Stibitz GR,McCann FV

更新日期：1974-02-01 00:00:00

abstract：:The adhesion of red blood cells (RBCs) to cells or surfaces is of current basic science and clinical interest yet the details governing this process are still being explored. In this study, the effects of nonadsorbing polymers on the adhesion of RBC to albumin-coated glass have been investigated employing interference...

journal_title：Biophysical journal

authors： Zhang ZW,Neu B

更新日期：2009-08-19 00:00:00

abstract：:We present a minimal model of plasma membrane heterogeneity that combines criticality with connectivity to cortical cytoskeleton. The development of this model was motivated by recent observations of micron-sized critical fluctuations in plasma membrane vesicles that are detached from their cortical cytoskeleton. We i...

journal_title：Biophysical journal

authors： Machta BB,Papanikolaou S,Sethna JP,Veatch SL

更新日期：2011-04-06 00:00:00

abstract：:Morphogenesis involves the dynamic interplay of biochemical, mechanical, and electrical processes. Here, we ask to what extent can the course of morphogenesis be modulated and controlled by an external electric field? We show that at a critical amplitude, an external electric field can halt morphogenesis in Hydra rege...

journal_title：Biophysical journal

authors： Braun E,Ori H

更新日期：2019-10-15 00:00:00

abstract：:Wiener kernels have been measured for the light growth response of a number of mutants of Phycomyces which show abnormal phototropism (mad mutants). Representative mutants were chosen from the six complementation groups (madA to madF) associated with the light response pathway. One group, madA, associated with the inp...

journal_title：Biophysical journal

authors： Lipson ED

更新日期：1975-10-01 00:00:00

abstract：:The potassium selective, inward rectifier current (IK1) is known to be responsible for maintaining the resting membrane potential of quiescent ventricular myocytes. However, the contribution of this current to the different phases of the cardiac action potential has not been adequately established. In the present stud...

journal_title：Biophysical journal

authors： Ibarra J,Morley GE,Delmar M

更新日期：1991-12-01 00:00:00

abstract：:Because of their remarkable ability to depress the freezing point of aqueous solutions, antifreeze proteins (AFPs) play a critical role in helping many organisms survive subzero temperatures. The beta-helical insect AFP structures solved to date, consisting of multiple repeating circular loops or coils, are perhaps th...

journal_title：Biophysical journal

authors： Liu K,Jia Z,Chen G,Tung C,Liu R

更新日期：2005-02-01 00:00:00

abstract：:The mechanisms that limit the speed at which striated muscles relax are poorly understood. This work presents, to our knowledge, novel simulations that show that the time course of relaxation is accelerated by interfilamentary movement resulting from series compliance; force drops faster when myosin heads move relativ...

journal_title：Biophysical journal

authors： Campbell KS

更新日期：2016-02-02 00:00:00

abstract：:Interactions between proteins are often sufficiently weak that their study through the use of conventional structural techniques becomes problematic. Of the few techniques capable of providing experimental measures of weak protein-protein interactions, perhaps the most useful is the second virial coefficient, B(22), w...

journal_title：Biophysical journal

authors： Elcock AH,McCammon JA

更新日期：2001-02-01 00:00:00

abstract：:The surprising observation that pressures of the order of 150 atmospheres can restore consciousness to an anesthetized animal has long been central to theories of the molecular mechanisms underlying general anesthesia. We have constructed a high-pressure gas chamber to test for "pressure reversal" of the best availabl...

journal_title：Biophysical journal

authors： Moss GW,Lieb WR,Franks NP

更新日期：1991-12-01 00:00:00

abstract：:Single-molecule studies allow the study of subtle activity differences due to local folding in proteins, but are time consuming and difficult because only a few molecules are observed in one experiment. We developed an assay where we can simultaneously measure the activity of hundreds of individual molecules. The assa...

journal_title：Biophysical journal

authors： Lee AI,Brody JP

更新日期：2005-06-01 00:00:00