Dynamics and diffusion in photosynthetic membranes from rhodospirillum photometricum.

abstract：:Intracellular reactions are carried out in a crowded medium where the macromolecules occupy ∼40% of the total volume. This decrease in the available volume affects the activity of the reactants. Scaled particle theory is used for the estimation of the activity coefficients of the metabolites, and thereby for the asses...

journal_title：Biophysical journal

authors： Angeles-Martinez L,Theodoropoulos C

更新日期：2015-12-01 00:00:00

abstract：:In the studies of force-induced conformational transitions of biomolecules, the large timescale difference from experiments presents the challenge of obtaining convergent sampling for molecular dynamics simulations. To circumvent this fundamental problem, an approach combining the replica-exchange method and umbrella ...

journal_title：Biophysical journal

authors： Zeng X,Hu H,Zhou HX,Marszalek PE,Yang W

更新日期：2010-02-17 00:00:00

abstract：:Recently, it has become clear that the influenza virus fusion protein, hemagglutinin (HA), produces membrane destabilization and fusion by a multistep process, which involves the aggregation of the HAs to form a fusion site. While the details of this process are under debate, it is important to recognize that proposin...

journal_title：Biophysical journal

authors： Bentz J

更新日期：1992-08-01 00:00:00

abstract：:Several investigators have demonstrated that under conditions where little or no gas exchange occurs across the alveolar capillary membrane the PCO(2) is higher in the alveolus than in the mixed venous blood, whereas there are no PO(2) differences. Gurtner et al. have explained the DeltaPCO(2) by a model in which H(+)...

journal_title：Biophysical journal

authors： Gurtner GH

更新日期：1972-06-01 00:00:00

abstract：:We explore the means by which immobilization of a substrate on a surface can increase the rate of a diffusion-controlled enzymatic reaction. A quasichemical approach is developed and compared with Brownian dynamics simulations. We use these methods to show that restricting only the orientation of the enzyme by long-ra...

journal_title：Biophysical journal

authors： Nag A,Dinner AR

更新日期：2006-02-01 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：:Electron paramagnetic resonance (EPR) spectroscopy using site-directed spin-labeling is an appropriate technique to analyze the structure and dynamics of flexible protein regions as well as protein-protein interactions under native conditions. The analysis of a set of protein mutants with consecutive spin-label positi...

journal_title：Biophysical journal

authors： Beier C,Steinhoff HJ

更新日期：2006-10-01 00:00:00

abstract：:Deciphering the mechanisms underlying the high sensitivity of cells to mechanical microenvironments is crucial for understanding many physiological and pathological processes, e.g., stem cell differentiation and cancer cell metastasis. Here, a cytoskeletal tensegrity model is proposed to study the reorientation of pol...

journal_title：Biophysical journal

authors： Xu GK,Li B,Feng XQ,Gao H

更新日期：2016-10-04 00:00:00

abstract：:A lattice relaxation algorithm is developed to solve the Poisson-Nernst-Planck (PNP) equations for ion transport through arbitrary three-dimensional volumes. Calculations of systems characterized by simple parallel plate and cylindrical pore geometries are presented in order to calibrate the accuracy of the method. A ...

journal_title：Biophysical journal

authors： Kurnikova MG,Coalson RD,Graf P,Nitzan A

更新日期：1999-02-01 00:00:00

abstract：:Clusters of calcium-loaded sarcoplasmic reticulum (SR) vesicles in agarose gel were previously shown to behave as an excitable medium that propagates calcium waves. In a 3D-hexagonal disposition, the distance between neighboring spheres (which may stand for SR vesicles) is constant and the relationship between distanc...

journal_title：Biophysical journal

authors： Wussling MH,Aurich I,Knauf O,Podhaisky H,Holzhausen HJ

更新日期：2004-12-01 00:00:00

abstract：:This contribution describes measurements of lipid bilayer domain line tension based on two-dimensional thermal undulations of membranes with liquid ordered/liquid disordered phase coexistence and near-critical composition at room temperature. Lateral inhomogeneity of lipid and protein composition is currently a subjec...

journal_title：Biophysical journal

authors： Esposito C,Tian A,Melamed S,Johnson C,Tee SY,Baumgart T

更新日期：2007-11-01 00:00:00

abstract：:We present direct quasielastic neutron scattering measurements, in vivo, of macromolecular dynamics in Escherichia coli. The experiments were performed on a wide range of timescales to cover the large panel of internal and self-diffusion motions. Three major internal processes were extracted at physiological temperatu...

journal_title：Biophysical journal

authors： Jasnin M,Moulin M,Haertlein M,Zaccai G,Tehei M

更新日期：2008-07-01 00:00:00

abstract：:Cell adhesion to the extracellular matrix (ECM) is highly active and plays a crucial role in various physiological functions. The active response of cells to physicochemical cues has been universally discovered in multiple microenvironments. However, the mechanisms to rule these active behaviors of cells are still poo...

journal_title：Biophysical journal

authors： Fang Y,Gong H,Yang R,Lai KWC,Quan M

更新日期：2020-06-02 00:00:00

abstract：:The effect of a transmembrane peptide on the domain structure of a two-component, two-phase lipid bilayer composed of dimyristoyl phosphatidylcholine (DMPC) and distearoyl phosphatidylcholine (DSPC) was examined by spin label electron spin resonance (ESR) spectroscopy. The peptide, pOmpA, is the hydrophobic, 25-residu...

journal_title：Biophysical journal

authors： Sankaram MB,Marsh D,Gierasch LM,Thompson TE

更新日期：1994-06-01 00:00:00

abstract：:It has recently been observed in situ in mice that insulin takes approximately 10 min to be transported 20 microm into the t-tubule networks of skeletal muscle fibers. The mechanisms for this slow transport are unknown. It has been suggested that the biochemical composition of the t-tubular space that may include larg...

journal_title：Biophysical journal

authors： Shorten PR,McMahon CD,Soboleva TK

更新日期：2007-11-01 00:00:00

abstract：:A method for determination of the orientation of adsorbed structure-stable proteins using Total Internal Reflection Fluorescence is outlined. The theory has been elaborated for orientation studies on adsorbed free base cytochrome c, of which the prophyrin can be used as an intrinsic fluorescent label. The ratio of flu...

journal_title：Biophysical journal

authors： Fraaije JG,Kleijn JM,van der Graaf M,Dijt JC

更新日期：1990-05-01 00:00:00

abstract：:Dendrites of cerebellar Purkinje cells (PCs) respond to brief excitations from parallel fibers with lasting plateau depolarizations. It is unknown whether these plateaus are local events that boost the synaptic signals or they propagate to the soma and directly take part in setting the cell firing dynamics. To address...

journal_title：Biophysical journal

authors： Genet S,Sabarly L,Guigon E,Berry H,Delord B

更新日期：2010-07-21 00:00:00

abstract：:The structure and dynamics of a large segment of Ste2p, the G-protein-coupled alpha-factor receptor from yeast, were studied in dodecylphosphocholine (DPC) micelles using solution NMR spectroscopy. We investigated the 73-residue peptide EL3-TM7-CT40 consisting of the third extracellular loop 3 (EL3), the seventh trans...

journal_title：Biophysical journal

authors： Neumoin A,Arshava B,Becker J,Zerbe O,Naider F

更新日期：2007-07-15 00:00:00

abstract：:The adhesion of giant unilamellar phospholipid vesicles to planar substrates coated with extracellular matrix mimetic cushions of hyaluronan is studied using quantitative reflection interference contrast microscopy. The absolute height of the vesicle membrane at the vicinity of the substrate is measured by considering...

journal_title：Biophysical journal

authors： Limozin L,Sengupta K

更新日期：2007-11-01 00:00:00

abstract：:A recipe is given for designing theoretical models for donor-acceptor systems in which fluorescence energy transfer and motion takes place simultaneously. This recipe is based on the idea that a system exhibiting both motion and fluorescence energy transfer can be modeled by specifying a number of "states" and the rat...

journal_title：Biophysical journal

authors： van der Meer BW,Raymer MA,Wagoner SL,Hackney RL,Beechem JM,Gratton E

更新日期：1993-04-01 00:00:00

abstract：:We study the folding of small proteins inside confining potentials. Proteins are described using an effective potential model that contains the Ramachandran angles as degrees of freedom and does not need any a priori information about the native state. Hydrogen bonds, dipole-dipole-, and hydrophobic interactions are t...

journal_title：Biophysical journal

authors： Ojeda P,Garcia ME,Londoño A,Chen NY

更新日期：2009-02-01 00:00:00

abstract：:Potentiometric titrations and surface potential measurements have been used to determine the intrinsic pKa values of both the carboxyl and amino groups of phosphatidylserine (PS) in mixed vesicles of PS and phosphatidylcholine (PC), and also of the amino group of phosphatidylethanolamine (PE) in mixed PE-PC vesicles. ...

journal_title：Biophysical journal

authors： Tsui FC,Ojcius DM,Hubbell WL

更新日期：1986-02-01 00:00:00

abstract：:The jaws of the bloodworm Glycera dibranchiata consist principally of protein and melanin scaffolds with small amounts of unmineralized copper (Cu) and mineralized atacamite (Cu(2)Cl(OH)(3)) fibers in distinct regions. Remarkably, when tested in air, the regions containing unmineralized Cu are the hardest, stiffest, a...

journal_title：Biophysical journal

authors： Moses DN,Pontin MG,Waite JH,Zok FW

更新日期：2008-04-15 00:00:00

abstract：:The geometry and mechanical properties of the human erythrocyte membrane cytoskeleton are investigated by a computer simulation in which the cytoskeleton is represented by a network of polymer chains. Four elastic moduli as well as the area and thickness are predicted for the chain network as a function of temperature...

journal_title：Biophysical journal

authors： Boal DH

更新日期：1994-08-01 00:00:00

abstract：:We present a molecular model of a chromatophore vesicle from Rhodobacter sphaeroides. These vesicles are ideal benchmark systems for molecular and systemic simulations, because they have been well studied, they are small, and they are naturally separated from their cellular environment. To set up a photosynthetic chai...

journal_title：Biophysical journal

authors： Geyer T,Helms V

更新日期：2006-08-01 00:00:00

abstract：:In vitro and in situ tests have been run to characterize the reaction of the mettalochromic indicator, arsenazo III, with calcium. Job plots as well as plots of indicator absorbance vs. [Ca2+] at different indicator concentrations show a 1:1 reaction stoichiometry. Equilibrium analysis and analysis using Adair's equat...

journal_title：Biophysical journal

authors： Ahmed Z,Kragie L,Connor JA

更新日期：1980-12-01 00:00:00

abstract：:This work presents a discrete multidomain model that describes ionic diffusion pathways between connected cells and within the interstitium. Unlike classical models of impulse propagation, the intracellular and extracellular spaces are represented as spatially distinct volumes with dynamic/static boundary conditions t...

journal_title：Biophysical journal

authors： Roberts SF,Stinstra JG,Henriquez CS

更新日期：2008-10-01 00:00:00

abstract：:The effects of Hofmeister anions on the perpendicular and lateral equation-of-state (EOS) of the dipalmitoylphosphatidylcholine lamellar phase discussed in the companion article are here examined using appropriate free energy models for the intra- and interbilayer interactions. Minimizing the free energy with respect ...

journal_title：Biophysical journal

authors： Leontidis E,Aroti A,Belloni L,Dubois M,Zemb T

更新日期：2007-09-01 00:00:00

abstract：:We investigate a temperature-driven recursive division of binary giant unilamellar vesicles (GUVs). During the heating step of the heating-cooling cycle, the spherical mother vesicle deforms to a budded limiting shape using up the excess area produced by the chain melting of the lipids and then splits off into two dau...

journal_title：Biophysical journal

authors： Jimbo T,Sakuma Y,Urakami N,Ziherl P,Imai M

更新日期：2016-04-12 00:00:00

abstract：:The switch 1 region of myosin forms a lid over the nucleotide phosphates as part of a structure known as the phosphate-tube. The homologous region in kinesin-family motors is more open, not interacting with the nucleotide. We used molecular dynamics (MD) simulations to examine a possible displacement of switch 1 of th...

journal_title：Biophysical journal

authors： Minehardt TJ,Cooke R,Pate E,Kollman PA

更新日期：2001-03-01 00:00:00