A Model for Link Pruning to Establish Correctly Polarized and Oriented Tip Links in Hair Bundles.

abstract：:Molecular interactions are often transient and might change within the window of observation, leading to changes in molecule movement. Therefore, accurate motion analysis often requires transient motion classification. Here we present an accurate and computationally efficient transient mobility analysis framework, ter...

journal_title：Biophysical journal

authors： Vega AR,Freeman SA,Grinstein S,Jaqaman K

更新日期：2018-03-13 00:00:00

abstract：:Certain antibiotic peptides are thought to permeabilize membranes of pathogens by effects that are also observed for simple detergents, such as membrane thinning and disordering, asymmetric bilayer expansion, toroidal pore formation, and micellization. Here we test the hypothesis that such peptides act additively with...

journal_title：Biophysical journal

authors： Patel H,Huynh Q,Bärlehner D,Heerklotz H

更新日期：2014-05-20 00:00:00

abstract：:We have chemically modified a fraction of the monomers in actin filaments, and then measured the effects on the functional interaction of myosin with unmodified monomers within the same filament. Two modifications were used: (a) covalent attachment of various amounts of myosin subfragment-1 (S1) with the bifunctional ...

journal_title：Biophysical journal

authors： Prochniewicz E,Katayama E,Yanagida T,Thomas DD

更新日期：1993-07-01 00:00:00

abstract：:Photosystem II catalyzes photosynthetic water oxidation in plants, green algae, and cyanobacteria. The manganese-containing active site cycles through a series of five oxidation states, S(n), where n refers to the number of oxidizing equivalents stored. In this report, reaction-induced Fourier transform infrared and e...

journal_title：Biophysical journal

authors： Halverson KM,Barry BA

更新日期：2003-10-01 00:00:00

abstract：:Aggregated Markov models are a widely used tool to model patch clamp data measured from single ion channels. These channels must obey the principle of detailed balance in thermodynamic equilibrium; otherwise, the channel is driven by an external source of energy. We investigate the power of a likelihood ratio test for...

journal_title：Biophysical journal

authors： Wagner M,Timmer J

更新日期：2000-12-01 00:00:00

abstract：:Very high dielectric constants have been observed for bacteria at low frequencies. High dielectric constants such as these can be explained by a theory which has been developed for the low-frequency dielectric dispersion of porous charged particles and which has been tested successfully through measurements with ion e...

journal_title：Biophysical journal

authors： Einolf CW Jr,Carstensen EL

更新日期：1973-01-01 00:00:00

abstract：:The photoelectron quantum yield spectrum of bacteriochlorophyll aGg (Bchl a ) from Rhodospirillum rubrum was determined in order to evaluate the possibility of mapping photoreceptor distribution and organization in bacterial chromatophores. The quantum yield is on the order of 1 X 10(-3) electrons/incident photon at 1...

journal_title：Biophysical journal

authors： Barnes RB,Amend J,Sistrom WR,Griffith OH

更新日期：1978-03-01 00:00:00

abstract：:RNA junctions are common secondary structural elements present in a wide range of RNA species. They play crucial roles in directing the overall folding of RNA molecules as well as in a variety of biological functions. In particular, there has been great interest in the dynamics of RNA junctions, including conformation...

journal_title：Biophysical journal

authors： Jung S,Schlick T

更新日期：2014-01-21 00:00:00

abstract：:Ionotropic glutamate receptors are essential for fast synaptic nerve transmission. Recent x-ray structures for the ligand-binding (S1S2) region of the GluR2 alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionic acid (AMPA)-sensitive receptor have suggested how differences in protein/ligand interactions may determine wh...

journal_title：Biophysical journal

authors： Arinaminpathy Y,Sansom MS,Biggin PC

更新日期：2002-02-01 00:00:00

abstract：:The theoretical basis of an optical microscope technique to image dynamically scattered light fluctuation decay rates (dynamic light scattering microscopy) is developed. It is shown that relative motions between scattering centers even smaller than the optical resolution of the microscope are sufficient to produce sig...

journal_title：Biophysical journal

authors： Dzakpasu R,Axelrod D

更新日期：2004-08-01 00:00:00

abstract：:Polymers play an important role in many biological systems, so a fundamental understanding of their cross-links is crucial not only for the development of medicines but also for the development of biomimetic materials. The biomechanical movements of all mammals are aided by tendon fibrils. The self-organization and bi...

journal_title：Biophysical journal

authors： Gutsmann T,Hassenkam T,Cutroni JA,Hansma PK

更新日期：2005-07-01 00:00:00

abstract：:Theoretical models predict that macromolecular crowding can increase protein folding stability, but depending on details of the models (e.g., how the denatured state is represented), the level of stabilization predicted can be very different. In this study, we represented the native and denatured states atomistically,...

journal_title：Biophysical journal

authors： Qin S,Zhou HX

更新日期：2009-07-08 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：:We present a quantitative analysis of conformational changes of the nucleotide-binding subunits, MalK(2), of the maltose ATP-binding cassette importer MalFGK(2) during the transport cycle. Distance changes occurring between selected residues were monitored in the full transporter by site-directed spin-labeling electro...

journal_title：Biophysical journal

authors： Grote M,Bordignon E,Polyhach Y,Jeschke G,Steinhoff HJ,Schneider E

更新日期：2008-09-15 00:00:00

abstract：:Recent experiments (1,2) have shown that hydrophobic ions adsorbed to lipid membranes repel each other significantly at densities as low as one charge every few tens of square nanometers. This paper shows how to calculate the mutual repulsion of a population of such ions, assumed to be discrete but free to diffuse lat...

journal_title：Biophysical journal

authors： Tsien RY

更新日期：1978-11-01 00:00:00

abstract：:Changes in voltage-dependent gating represent a common pathogenetic mechanism for genetically inherited channelopathies, such as benign familial neonatal seizures or peripheral nerve hyperexcitability caused by mutations in neuronal K(v)7.2 channels. Mutation-induced changes in channel voltage dependence are most ofte...

journal_title：Biophysical journal

authors： Miceli F,Vargas E,Bezanilla F,Taglialatela M

更新日期：2012-03-21 00:00:00

abstract：:We present an analysis of physical chemical constraints on the accuracy of DNA micro-arrays under equilibrium and nonequilibrium conditions. At the beginning of the article we describe an algorithm for choosing a probe set with high specificity for targeted genes under equilibrium conditions. The algorithm as well as ...

journal_title：Biophysical journal

authors： Bhanot G,Louzoun Y,Zhu J,DeLisi C

更新日期：2003-01-01 00:00:00

abstract：:One of the most common swimming strategies employed by microorganisms is based on the use of rotating helical filaments, called flagella, that are powered by molecular motors. Determining the physical properties of this propulsive system is crucial to understanding the behavior of these organisms. Furthermore, the abi...

journal_title：Biophysical journal

authors： Pierce CJ,Osborne E,Mumper E,Lower BH,Lower SK,Sooryakumar R

更新日期：2019-10-01 00:00:00

abstract：:To elucidate the mechanisms of cooperativity of cytochrome P450eryF an SH-reactive fluorescent probe was introduced close to the substrate-binding site. Cys-154, the only accessible cysteine, was eliminated by site-directed mutagenesis, and a novel cysteine was substituted for Ser-93 in the B'/C loop. S93C, C154A, C15...

journal_title：Biophysical journal

authors： Davydov DR,Botchkareva AE,Davydova NE,Halpert JR

更新日期：2005-07-01 00:00:00

abstract：:Spontaneous conversion of beta-amyloid peptide (Abeta) from soluble monomer to insoluble fibril may underlie the neurodegeneration associated with Alzheimer's disease. A complete description of Abeta self-association kinetics requires identification of the oligomeric species present and the pathway of association, as ...

journal_title：Biophysical journal

authors： Pallitto MM,Murphy RM

更新日期：2001-09-01 00:00:00

abstract：:Molecular dynamics simulations have been performed of the sequence-symmetric cyclic decapeptide antibiotic gramicidin S (GS), in interaction with a hydrated dimyristoylphosphatidylcholine (DMPC) bilayer, and the results compared with a "control" simulation of the system in the absence of GS. Following experimental evi...

journal_title：Biophysical journal

authors： Mihailescu D,Smith JC

更新日期：2000-10-01 00:00:00

abstract：:Aquaporin (AQP) functions as a water-conducting pore. Mercury inhibits the water permeation through AQP. Although site-directed mutagenesis has shown that mercury binds to Cys189 during the inhibition process, it is not fully understood how this inhibits the water permeation through AQP1. We carried out 40 ns molecula...

journal_title：Biophysical journal

authors： Hirano Y,Okimoto N,Kadohira I,Suematsu M,Yasuoka K,Yasui M

更新日期：2010-04-21 00:00:00

abstract：:The information theory measure of transfer entropy is used to extract the causality of correlated motions from molecular dynamics simulations. For each pair of correlated residues, the method quantifies which residue drives the correlated motions, and which residue responds. The measure reveals how correlated motions ...

journal_title：Biophysical journal

authors： Kamberaj H,van der Vaart A

更新日期：2009-09-16 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 interaction between two stiff parallel DNA molecules is discussed using linear Debye-Hückel screening theory with and without inclusion of the dielectric discontinuity at the DNA surface, taking into account the helical symmetry of DNA. The pair potential furthermore includes the amount and distribution of counter...

journal_title：Biophysical journal

authors： Harreis HM,Likos CN,Löwen H

更新日期：2003-06-01 00:00:00

abstract：:Atomic force microscopy (AFM) is nowadays frequently applied to determine interaction forces between biological molecules. Starting with the detection of the first discrete unbinding forces between ligands and receptors by AFM only several years ago, measurements have become more and more quantitative. At the same tim...

journal_title：Biophysical journal

authors： Willemsen OH,Snel MM,Cambi A,Greve J,De Grooth BG,Figdor CG

更新日期：2000-12-01 00:00:00

abstract：:We have measured the static magnetization of unreduced and reduced reaction centers that vary in their quinone content. Measurements were performed in the temperature range 0.7 degrees K less than T less than 200 degrees K and magnetic fields of up to 10 kG. The electronic g-value, crystal field parameters D, E, and t...

journal_title：Biophysical journal

authors： Butler WF,Johnston DC,Shore HB,Fredkin DR,Okamura MY,Feher G

更新日期：1980-12-01 00:00:00

abstract：:EXACT FORMULAS ARE DERIVED FOR THE ENERGY CHANGE OF A DIPOLE SYSTEM WITH TWO ENERGY STATES (OR BANDS) IN A CHANGING FIELD IN TWO CASES: (a) no dipole flip-flop and (b) dipole flip-flop caused by stimulation. Based on these formulas, the positive and negative heats are calculated. The results are in good agreement with...

journal_title：Biophysical journal

authors： Wei LY

更新日期：1972-09-01 00:00:00

abstract：:The stability of OmpA in large unilamellar vesicles of dilauroyl phosphatidylcholine was studied using different concentrations of urea. The effective energy of unfolding, as determined from refolding experiments, is greater than that for small sonicated unilamellar vesicles by an amount that is compatible with estima...

journal_title：Biophysical journal

authors： Pocanschi CL,Patel GJ,Marsh D,Kleinschmidt JH

更新日期：2006-10-15 00:00:00

abstract：:The molecular motor protein myosin VI moves toward the minus-end of actin filaments with a step size of 30-36 nm. Such large step size either drastically limits the degree of complex formation between dimer subunits to leave enough length for the lever arms, or requires an extension of the lever arms' crystallographic...

journal_title：Biophysical journal

authors： Liu Y,Hsin J,Kim H,Selvin PR,Schulten K

更新日期：2011-06-22 00:00:00