The hydrodynamics of DNA electrophoretic stretch and relaxation in a polymer solution.

abstract：:Biological cells embedded in fibrous matrices have been observed to form intercellular bands of dense and aligned fibers through which they mechanically interact over long distances. Such matrix-mediated cellular interactions have been shown to regulate various biological processes. This study aimed to explore the eff...

journal_title：Biophysical journal

authors： Sopher RS,Tokash H,Natan S,Sharabi M,Shelah O,Tchaicheeyan O,Lesman A

更新日期：2018-10-02 00:00:00

abstract：:Previously, we discussed the calculation of the dipole moments of small proteins using the three-dimensional protein data-base. Our results demonstrate that the calculated dipole moments are in acceptable agreement with measured values. We, however, noted the difficulty of the calculation with larger proteins, in part...

journal_title：Biophysical journal

authors： Takashima S

更新日期：1993-05-01 00:00:00

abstract：:By combining the osmotic stress technique with small-angle x-ray scattering measurements, we followed the structural response of the casein micelle to an overall increase in concentration. When the aqueous phase that separates the micelles is extracted, they behave as polydisperse repelling spheres and their internal ...

journal_title：Biophysical journal

authors： Bouchoux A,Gésan-Guiziou G,Pérez J,Cabane B

更新日期：2010-12-01 00:00:00

abstract：:Tagging of individual proteins with genetically encoded fluorescent proteins (FPs) has been used extensively to study localization and interactions in live cells. Recent developments in single-molecule localization microscopy have enabled the dynamic visualization of individual tagged proteins inside living cells. How...

journal_title：Biophysical journal

authors： Ghodke H,Caldas VE,Punter CM,van Oijen AM,Robinson A

更新日期：2016-07-12 00:00:00

abstract：:Calculations based on the known dimensions of bull spermatozoa show that the scattered light intensity is strongly dependent upon the relative orientation of the particle to the incident beam. The magnitude of this effect of apparently much greater than for other systems where motility has been investigated by dynamic...

journal_title：Biophysical journal

authors： Harvey JD,Woolford MW

更新日期：1980-07-01 00:00:00

abstract：:The backbone dynamics for the 29.5 kDa class A beta-lactamase PSE-4 is presented. This solution NMR study was performed using multiple field (15)N spin relaxation and amide exchange data in the EX2 regime. Analysis was carried out with the relax program and includes the Lipari-Szabo model-free approach. Showing simila...

journal_title：Biophysical journal

authors： Morin S,Gagné SM

更新日期：2009-06-03 00:00:00

abstract：:In this paper, we report on the presence of cation binding areas on bovine serum amine oxidase, where metal ions of the groups IA and IIA, such as Na(+), K(+), Cs(+), Mg(2+), and Ca(2+), bind with various affinities. We found a cation-binding area that influences the enzyme activity if occupied, so that the catalytic ...

journal_title：Biophysical journal

authors： Di Paolo ML,Scarpa M,Corazza A,Stevanato R,Rigo A

更新日期：2002-10-01 00:00:00

abstract：:OVER A DECADE AND A HALF AGO, WHEN THE FIRST VISIBLE MEMBRANE SUSPENSION CIRCULAR DICHROIC (CD) SPECTRUM OF THE PURPLE MEMBRANE (PM) WAS PRESENTED, TWO MECHANISMS WERE PROPOSED TO ACCOUNT FOR THE OBSERVED BIPHASIC SHAPED CD BAND: (a) excitonic interactions among the retinals of the sole protein bacteriorhodopsin (bR) ...

journal_title：Biophysical journal

authors： Cassim JY

更新日期：1992-11-01 00:00:00

abstract：:We present a qualitative computer graphics approach to the characterization of forces important to the assembly of beta domains that should have general utility for examining protein interactions and assembly. In our approach, the nature of the molecular surface buried by the domain contacts, the specificity of the re...

journal_title：Biophysical journal

authors： Getzoff ED,Tainer JA,Olson AJ

更新日期：1986-01-01 00:00:00

abstract：:The oligomeric state and function of band 3, purified by sulfhydryl affinity chromatography in reduced Triton X-100, was investigated. Size exclusion high-performance liquid chromatography showed that a homogeneous population of band 3 dimers could be purified from whole erythrocyte membranes. The elution profile of b...

journal_title：Biophysical journal

authors： Taylor AM,Boulter J,Harding SE,Cölfen H,Watts A

更新日期：1999-04-01 00:00:00

abstract：:We used high-resolution atomic force microscopy to image the compaction of linear and circular DNA by the yeast mitochondrial protein Abf2p, which plays a major role in packaging mitochondrial DNA. Atomic force microscopy images show that protein binding induces drastic bends in the DNA backbone for both linear and ci...

journal_title：Biophysical journal

authors： Friddle RW,Klare JE,Martin SS,Corzett M,Balhorn R,Baldwin EP,Baskin RJ,Noy A

更新日期：2004-03-01 00:00:00

abstract：:We are interested in modeling the membrane-spanning domain of the serotonin 5-HT1A G-protein coupled receptor. This superfamily of proteins is predicted to share the topology of the seven transmembrane helices of bacteriorhodopsin (BR), even though no significant sequence homology had been identified. We found signifi...

journal_title：Biophysical journal

authors： Ballesteros JA,Weinstein H

更新日期：1992-04-01 00:00:00

abstract：:Quantitative analysis of DNA microarray data is complicated by uncertainties inherent to the experimental setup. Using computer simulations and real-time experimental results, we have previously demonstrated effects of multiplex reactions on a single sensing zone of an array, which may be a leading factor in erroneous...

journal_title：Biophysical journal

authors： Bishop J,Chagovetz AM,Blair S

更新日期：2008-03-01 00:00:00

abstract：:Using molecular dynamics simulations, we examine the behavior of lipids whose preferred curvature can be systematically varied. This curvature is imposed by controlling the headgroup size of a coarse-grained lipid model recently developed by us. To validate this approach, we examine self-assembly of each individual li...

journal_title：Biophysical journal

authors： Cooke IR,Deserno M

更新日期：2006-07-15 00:00:00

abstract：:Fluorescent probes in biological systems are sensitive to environmental polarity by virtue of their response to the reaction field created by polarization of the dielectric medium. Classically, fluorophore solvatochromism is analyzed in terms of the Lippert equation and later variants, all of which rely upon the origi...

journal_title：Biophysical journal

authors： Marsh D

更新日期：2009-04-08 00:00:00

abstract：:It is well known that the dsDNA molecule undergoes a phase transition from B-DNA into an overstretched state at high forces. For some time, the structure of the overstretched state remained unknown and highly debated, but recent advances in experimental techniques have presented evidence of more than one possible phas...

journal_title：Biophysical journal

authors： Argudo D,Purohit PK

更新日期：2014-11-04 00:00:00

abstract：:Thermodynamic analysis of metabolic networks has recently generated increasing interest for its ability to add constraints on metabolic network operation, and to combine metabolic fluxes and metabolite measurements in a mechanistic manner. Concepts for the calculation of the change in Gibbs energy of biochemical react...

journal_title：Biophysical journal

authors： Jol SJ,Kümmel A,Hatzimanikatis V,Beard DA,Heinemann M

更新日期：2010-11-17 00:00:00

abstract：:The cell membrane having a transport system is inferred to be flexible when its function is being activated. For the brush border membrane vesicles prepared from rat small intestine, which have the co-transport system of Na+ and glucose, the membrane elasticity was measured as a function of the d-glucose concentration...

journal_title：Biophysical journal

authors： Miyamoto S,Maeda T,Fujime S

更新日期：1988-04-01 00:00:00

abstract：:Light-induced dielectrophoretic movement of polystyrene beads and lambda-DNA is studied using thin films of amorphous hydrogenated silicon as local photoaddressable electrodes with a diameter of 4 microm. Positive (high-field seeking) dielectrophoretic movement is observed for both types of objects. The absence of str...

journal_title：Biophysical journal

authors： Hoeb M,Rädler JO,Klein S,Stutzmann M,Brandt MS

更新日期：2007-08-01 00:00:00

abstract：:The cornea is the primary refractive lens in the eye and transmits >90% of incident visible light. It has been suggested that the development of postoperative corneal haze could be due to an increase in light scattering from activated corneal stromal cells. Quiescent keratocytes are thought to produce crystallins that...

journal_title：Biophysical journal

authors： Gardner SJ,White N,Albon J,Knupp C,Kamma-Lorger CS,Meek KM

更新日期：2015-10-20 00:00:00

abstract：:We use optical tweezers microrheology and fluorescence microscopy to apply nonlinear microscale strains to entangled and cross-linked actin networks, and measure the resulting stress and actin filament deformations. We couple nonlinear stress response and relaxation to the velocities and displacements of individual fl...

journal_title：Biophysical journal

authors： Gurmessa B,Ricketts S,Robertson-Anderson RM

更新日期：2017-10-03 00:00:00

abstract：:The muscle nicotinic receptor (AChR) is a pentamer of four different subunits, each of which contains four transmembrane domains (M1-M4). We recently showed that channel opening and closing rates of the AChR depend on a hydrogen bond involving a threonine at position 14' of the M4 domain in the alpha-subunit. To deter...

journal_title：Biophysical journal

authors： Bouzat C,Gumilar F,del Carmen Esandi M,Sine SM

更新日期：2002-04-01 00:00:00

abstract：:In a pure fluid-phase lipid, the dependence of the lateral diffusion coefficient on the size of the diffusing particle may be obtained from the Saffman-Delbrück equation or the free-volume model. When diffusion is obstructed by immobile proteins or domains of gel-phase lipids, the obstacles yield an additional contrib...

journal_title：Biophysical journal

authors： Saxton MJ

更新日期：1993-04-01 00:00:00

abstract：:A free radical probe was introduced into single barnacle muscle cells, and its freedom of motion inferred from the spin resonance spectra. The probe reported an average local viscosity of 5-10 cp compared with 1 cp for pure water. From a comparison of the temperature dependence of the probe's tumbling rate in model aq...

journal_title：Biophysical journal

authors： Sachs F,Latorre R

更新日期：1974-04-01 00:00:00

abstract：:Most of the decisive molecular events in biology take place at the protein-water interface. The dynamical properties of the hydration layer are therefore of fundamental importance. To characterize the dynamical heterogeneity and rotational activation energy in the hydration layer, we measured the (17)O spin relaxation...

journal_title：Biophysical journal

authors： Mattea C,Qvist J,Halle B

更新日期：2008-09-15 00:00:00

abstract：:Structure factor amplitudes and phases can be computed directly from electron cryomicroscopy images. Inherent aberrations of the electromagnetic lenses and other instrumental factors affect the structure factors, however, resulting in decreased accuracy in the determined three-dimensional reconstruction. In contrast, ...

journal_title：Biophysical journal

authors： Thuman-Commike PA,Tsuruta H,Greene B,Prevelige PE Jr,King J,Chiu W

更新日期：1999-04-01 00:00:00

abstract：:We have investigated the phase behavior of self-assembled lyotropic liquid crystals (LC) formed by ternary mixtures of oleoylethanolamide (OEA), water and arginine. OEA, a natural analog of the endogenous cannabinoid anandamide involved in the peripheral regulation of feeding, was selected as a main component due to i...

journal_title：Biophysical journal

authors： Mohammady SZ,Pouzot M,Mezzenga R

更新日期：2009-02-18 00:00:00

abstract：:The suprachiasmatic nucleus governs daily variations of physiology and behavior in mammals. Within single neurons, interlocked transcriptional/translational feedback loops generate circadian rhythms on the molecular level. We present a mathematical model that reflects the essential features of the mammalian circadian ...

journal_title：Biophysical journal

authors： Becker-Weimann S,Wolf J,Herzel H,Kramer A

更新日期：2004-11-01 00:00:00

abstract：:The clustering of ryanodine receptors (RyR2) into functional Ca2+ release units is central to current models for cardiac excitation-contraction (E-C) coupling. Using immunolabeling and confocal microscopy, we have analyzed the distribution of RyR2 clusters in rat and ventricular atrial myocytes. The resolution of the ...

journal_title：Biophysical journal

authors： Chen-Izu Y,McCulle SL,Ward CW,Soeller C,Allen BM,Rabang C,Cannell MB,Balke CW,Izu LT

更新日期：2006-07-01 00:00:00

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