Minor groove deformability of DNA: a molecular dynamics free energy simulation study.

abstract：:The rotation of human red blood cells (RBC) as they flow in the shear field established by a Coulter type orifice is modeled. This model, based on hydrodynamics of ellipsoid rotation in laminar creeping flow, is used to calculate the probability of the cells entering the orifice with a specific orientation. The electr...

journal_title：Biophysical journal

authors： Breitmeyer MO,Lightfoot EN,Dennis WH

更新日期：1971-02-01 00:00:00

abstract：:We introduce an intrinsically multiplexed and easy to implement method to apply an external force to a biomolecule and thus probe its interaction with a second biomolecule or, more generally, its environment (for example, the cell membrane). We take advantage of the hydrodynamic interaction with a controlled fluid flo...

journal_title：Biophysical journal

authors： Türkcan S,Richly MU,Bouzigues CI,Allain JM,Alexandrou A

更新日期：2013-07-02 00:00:00

abstract：:The spermine-induced DNA condensation is a first-order phase transition. Here, we apply a novel technique fluorescence lifetime correlation spectroscopy to analyze this transition in a greater detail. We show that the method allows for the observation of the condensed and uncondensed molecules simultaneously based sol...

journal_title：Biophysical journal

authors： Humpolícková J,Benda A,Sýkora J,Machán R,Kral T,Gasinska B,Enderlein J,Hof M

更新日期：2008-02-01 00:00:00

abstract：:2D-ELDOR spectroscopy has been employed to study the dynamic structure of the liquid-ordered (Lo) phase versus that of the liquid-crystalline (Lc) phase in multibilayer phospholipid vesicles without (Lc) and with (Lo) cholesterol, using end-chain and headgroup labels and spin-labeled cholestane. The spectra are in mos...

journal_title：Biophysical journal

authors： Costa-Filho AJ,Shimoyama Y,Freed JH

更新日期：2003-04-01 00:00:00

abstract：:The effects of different cations on the hydrodynamic radius (RH) of a 48-bp synthetic DNA are measured by time-resolved fluorescence polarization anisotropy of intercalated ethidium. Relative statistical errors in RH are only approximately 1%. With increasing cation concentration, Na+ causes a small decrease in RH, Cs...

journal_title：Biophysical journal

authors： Fujimoto BS,Miller JM,Ribeiro NS,Schurr JM

更新日期：1994-07-01 00:00:00

abstract：:Despite growing interest in light-driven ion pumps for use in optogenetics, current estimates of their transport rates span two orders of magnitude due to challenges in measuring slow transport processes and determining protein concentration and/or orientation in membranes in vitro. In this study, we report, to our kn...

journal_title：Biophysical journal

authors： Feroz H,Ferlez B,Lefoulon C,Ren T,Baker CS,Gajewski JP,Lugar DJ,Gaudana SB,Butler PJ,Hühn J,Lamping M,Parak WJ,Hibberd JM,Kerfeld CA,Smirnoff N,Blatt MR,Golbeck JH,Kumar M

更新日期：2018-07-17 00:00:00

abstract：:We apply fluorescence lifetime imaging to the membrane phase-sensing dye di-4-ANEPPDHQ in model membranes and live cells. We show that the 1700 ps lifetime shift between liquid-disordered and liquid-ordered phases offers greater contrast than the 60 nm spectral shift previously reported. Detection of cholesterol-rich ...

journal_title：Biophysical journal

authors： Owen DM,Lanigan PM,Dunsby C,Munro I,Grant D,Neil MA,French PM,Magee AI

更新日期：2006-06-01 00:00:00

abstract：:Chemical synaptic transmission is a fundamental component of interneuronal communications in the central nervous system (CNS). Discharge of a presynaptic vesicle containing a few thousand molecules (a quantum) of neurotransmitter into the synaptic cleft generates a transmitter concentration signal that drives postsyna...

journal_title：Biophysical journal

authors： Uteshev VV,Pennefather PS

更新日期：1997-03-01 00:00:00

abstract：:Pure bending of a membrane bilayer is developed including different properties for each membrane half. Both connected and unconnected bilayer surfaces are treated. The bilayer bending resistance is the resultant of parallel surface compression "resistances." The neutral surface is a function of the upper and lower sur...

journal_title：Biophysical journal

authors： Evans EA

更新日期：1974-12-01 00:00:00

abstract：:Hint2, one of the five members of the superfamily of the histidine triad AMP-lysine hydrolase proteins, is expressed in mitochondria of various cell types. In human adrenocarcinoma cells, Hint2 modulates Ca(2+) handling by mitochondria. As Hint2 is highly expressed in hepatocytes, we investigated if this protein affec...

journal_title：Biophysical journal

authors： Ndiaye D,Collado-Hilly M,Martin J,Prigent S,Dufour JF,Combettes L,Dupont G

更新日期：2013-09-03 00:00:00

abstract：:Two-color spatio-temporal image cross-correlation spectroscopy (STICCS) is a new, to our knowledge, image analysis method that calculates space-time autocorrelation and cross-correlation functions from fluorescence intensity fluctuations. STICCS generates cellular flow and diffusion maps that reveal interactions and c...

journal_title：Biophysical journal

authors： Toplak T,Pandzic E,Chen L,Vicente-Manzanares M,Horwitz AR,Wiseman PW

更新日期：2012-10-17 00:00:00

abstract：:The time-resolved thermodynamics of the flavin mononucleotide (FMN)-binding LOV1 domain of Chlamydomonas reinhardtii phot (phototropin homolog) was studied by means of laser-induced optoacoustic spectroscopy. In the wild-type protein the early red-shifted intermediate LOV(715) exhibits a small volume contraction, Delt...

journal_title：Biophysical journal

authors： Losi A,Kottke T,Hegemann P

更新日期：2004-02-01 00:00:00

abstract：:Each myosin molecule contains two heavy chains and a total of four low-molecular weight light chain subunits, two "essential" and two "regulatory" light chains (RLCs). Although the roles of myosin light chains in vertebrate striated muscle are poorly understood at present, recent studies on the RLC have suggested that...

journal_title：Biophysical journal

authors： Diffee GM,Greaser ML,Reinach FC,Moss RL

更新日期：1995-04-01 00:00:00

abstract：:Excitation-contraction coupling in atrial cells is mediated by calcium (Ca) signaling between L-type Ca channels and Ryanodine receptors that occurs mainly at the cell boundary. This unique architecture dictates essential aspects of Ca signaling under both normal and diseased conditions. In this study we apply laser s...

journal_title：Biophysical journal

authors： Shiferaw Y,Aistrup GL,Wasserstrom JA

更新日期：2017-08-08 00:00:00

abstract：:We extend the Saffman theory of membrane hydrodynamics to account for the correlated motion of membrane proteins, along with the effect of protein concentration on that correlation and on the response of the membrane to stresses. Expressions for the coupling diffusion coefficients of protein pairs and their concentrat...

journal_title：Biophysical journal

authors： Oppenheimer N,Diamant H

更新日期：2009-04-22 00:00:00

abstract：:The gelation of sickle hemoglobin includes the formation of spherulitic arrays of polymers, known as polymer domains, which are an intrinsic result of the polymer formation mechanism. We have observed the diffusion of monomers into domains as they form, which substantially increases the total concentration of hemoglob...

journal_title：Biophysical journal

authors： Cho MR,Ferrone FA

更新日期：1990-10-01 00:00:00

abstract：:We present the measurement of the force required to rupture a single protein-sugar bond using a methodology that provides selective discrimination between specific and nonspecific binding events and helps verify the presence of a single functional molecule on the atomic force microscopy tip. In particular, the interac...

journal_title：Biophysical journal

authors： Ratto TV,Langry KC,Rudd RE,Balhorn RL,Allen MJ,McElfresh MW

更新日期：2004-04-01 00:00:00

abstract：:Molecular dynamics simulations of the tripeptide Ala-Phe-Ala-O-tert-butyl interacting with dimyristoylphosphatidylcholine lipid bilayers have been carried out. The lipid and aqueous environments of the peptide, the alkyl chain order, and the lipid and peptide dynamics have been investigated with use of density profile...

journal_title：Biophysical journal

authors： Damodaran KV,Merz KM Jr,Gaber BP

更新日期：1995-10-01 00:00:00

abstract：:The B1 domain of protein G has been a classic model system of folding for decades, the subject of numerous experimental and computational studies. Most of the experimental work has focused on whether the protein folds via an intermediate, but the evidence is mostly limited to relatively slow kinetic observations with ...

journal_title：Biophysical journal

authors： Lapidus LJ,Acharya S,Schwantes CR,Wu L,Shukla D,King M,DeCamp SJ,Pande VS

更新日期：2014-08-19 00:00:00

abstract：:Steady state fluorescence polarization spectra and time-resolved emission decay kinetics have been measured in vitro from malignant and normal rat kidney tissue. The degrees of polarization and emission lifetimes from the cancerous and normal systems are different. The spectroscopic differences are attributed to envir...

journal_title：Biophysical journal

authors： Tata DB,Foresti M,Cordero J,Tomashefsky P,Alfano MA,Alfano RR

更新日期：1986-09-01 00:00:00

abstract：:We present a simple two-parameter model for surface charge directly associated with ion channels. A spherically symmetric "charged shell" models a distribution of surface charge arrayed about the channel entrance, with a corresponding set of image charges behind the plane of the membrane. The transition between a regi...

journal_title：Biophysical journal

authors： Naranjo D,Latorre R,Cherbavaz D,McGill P,Schumaker MF

更新日期：1994-01-01 00:00:00

abstract：:The skeletal muscles of chickens, frogs, and fish have been reported to express two isoforms (alpha and beta) of the sarcoplasmic reticulum calcium release channel (ryanodine receptor or RYR), while mammals express only one. We have studied patterns of RYR isoform expression in skeletal muscles from a variety of fish,...

journal_title：Biophysical journal

authors： O'Brien J,Meissner G,Block BA

更新日期：1993-12-01 00:00:00

abstract：:A number of important pluripotency regulators, including the transcription factor Nanog, are observed to fluctuate stochastically in individual embryonic stem cells. By transiently priming cells for commitment to different lineages, these fluctuations are thought to be important to the maintenance of, and exit from, p...

journal_title：Biophysical journal

authors： Smith RCG,Stumpf PS,Ridden SJ,Sim A,Filippi S,Harrington HA,MacArthur BD

更新日期：2017-06-20 00:00:00

abstract：:Structure-function studies of the Cys loop family of ionotropic neurotransmitter receptors (GABA, nACh, 5-HT(3), and glycine receptors) have resulted in a six-loop (A-F) model of the agonist-binding site. Key amino acids have been identified in these loops that associate with, and stabilize, bound ligand. The next ste...

journal_title：Biophysical journal

authors： Khatri A,Sedelnikova A,Weiss DS

更新日期：2009-01-01 00:00:00

abstract：:The cytoskeleton is involved in numerous cellular processes such as migration, division, and contraction and provides the tracks for transport driven by molecular motors. Therefore, it is very important to quantify the mechanical behavior of the cytoskeletal filaments to get a better insight into cell mechanics and or...

journal_title：Biophysical journal

authors： Pallavicini C,Levi V,Wetzler DE,Angiolini JF,Benseñor L,Despósito MA,Bruno L

更新日期：2014-06-17 00:00:00

abstract：:Single-stranded junctions/loops are frequently occurring structural motifs in nucleic acid structures. Due to the polyanionic nature of the nucleic acid backbone, metal ions play a crucial role in the loop stability. Here we use the tightly bound ion theory, which can account for the possible ion correlation and ensem...

journal_title：Biophysical journal

authors： Tan ZJ,Chen SJ

更新日期：2008-07-01 00:00:00

abstract：:Computations on sodium channel gating were conducted using a closed-open-inactivated coupled kinetic scheme. The time constant of inactivation (tauh) derives a voltage dependency from coupling to voltage-dependent activation even when rate constants between inactivated and other states are strictly voltage independent...

journal_title：Biophysical journal

authors： Goldman L

更新日期：1999-05-01 00:00:00

abstract：:The effect of intracellular (i) and extracellular (o) Na+ on pre-steady-state transient current associated with Na+/Na+ exchange by the Na+/K+ pump was investigated in the vegetal pole of Xenopus oocytes. Current records in response to 40-ms voltage pulses from -180 to +100 mV in the absence of external Na+ were subtr...

journal_title：Biophysical journal

authors： Holmgren M,Rakowski RF

更新日期：2006-03-01 00:00:00

abstract：:The four-alpha-helix bundle mimics the transmembrane domain of the Cys-loop receptor family believed to be the protein target for general anesthetics. Using high resolution NMR, we solved the structure (Protein Data Bank ID: 2I7U) of a prototypical dimeric four-alpha-helix bundle, (Aalpha(2)-L1M/L38M)(2,) with designe...

journal_title：Biophysical journal

authors： Ma D,Brandon NR,Cui T,Bondarenko V,Canlas C,Johansson JS,Tang P,Xu Y

更新日期：2008-06-01 00:00:00

abstract：:We have characterized the fluorescence properties of 6-dodecanoyl-2-dimethylamine-naphthalene (LAURDAN) in pure interfaces formed by sphingomyelin and 10 chemically related glycosphingolipids (GSLs).1 The GSLs contain neutral and anionic carbohydrate residues in their oligosaccharide chain. These systems were studied ...

journal_title：Biophysical journal

authors： Bagatolli LA,Gratton E,Fidelio GD

更新日期：1998-07-01 00:00:00