Refinement of the AMBER force field for nucleic acids: improving the description of alpha/gamma conformers.

abstract：:Raman spectroscopic data indicate that the conformations of the two hydrocarbon chains of dipalmitoyl phosphatidylcholine in aqueous dispersions of the lipid differ signficantly. The compounds 1-palmitoyl, 2-palmitoyl-d31-3-sn-phosphatidylcholine and 1-palmitoyl-d31, 2-palmitoyl-3-sn-phosphatidylcholine were synthesiz...

journal_title：Biophysical journal

authors： Gaber BP,Yager P,Peticolas WL

更新日期：1978-12-01 00:00:00

abstract：:We have used the elastic neutron scattering technique to investigate the dynamics of the two main saccharidic components of starch: amylose and amylopectin. The measurements were carried out in the temperature range of 20 to 320 K and at different hydration levels from the dry state up to 0.47 g saccharide/g D(2)O. In...

journal_title：Biophysical journal

authors： Di Bari M,Cavatorta F,Deriu A,Albanese G

更新日期：2001-08-01 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：:Two different stereoisomers of the dioxolane-linked gramicidin A (gA) channels were individually synthesized (the SS and RR dimers;. Science. 244:813-817). The structural differences between these dimers arise from different chiralities within the dioxolane linker. The SS dimer mimics the helicity and the inter- and i...

journal_title：Biophysical journal

authors： Quigley EP,Quigley P,Crumrine DS,Cukierman S

更新日期：1999-11-01 00:00:00

abstract：:The goal of this paper is to examine the origins and relative importance of primary and secondary sources of electric and magnetic fields for excitable tissue. It is shown that for axonal and cardiac tissue a comparison of the relative field strength from both primary and secondary sources shows only the latter to be ...

journal_title：Biophysical journal

authors： Plonsey R

更新日期：1982-09-01 00:00:00

abstract：:Actin polymerization is typically initiated at specific sites in a cell by membrane-bound protein complexes, and the resulting structures are involved in specialized cellular functions, such as migration, particle uptake, or mitotic division. Here we analyze the potential of the actin system to self-organize into wave...

journal_title：Biophysical journal

authors： Bretschneider T,Anderson K,Ecke M,Müller-Taubenberger A,Schroth-Diez B,Ishikawa-Ankerhold HC,Gerisch G

更新日期：2009-04-08 00:00:00

abstract：:Subdenaturing concentrations of guanidine hydrochloride (GdnHCl) stabilize proteins. For ferrocytochrome c the stabilization is detected at subglobal level with no measured change in global stability. These deductions are made by comparing observed rates of thermally driven ferrocytochrome cHCO reactions with global u...

journal_title：Biophysical journal

authors： Kumar R,Prabhu NP,Yadaiah M,Bhuyan AK

更新日期：2004-10-01 00:00:00

abstract：:The primary drivers of yeast endocytosis are actin polymerization and curvature-generating proteins, such as clathrin and BAR domain proteins. Previous work has indicated that these factors may not be capable of generating the forces necessary to overcome turgor pressure. Thus local reduction of the turgor pressure, v...

journal_title：Biophysical journal

authors： Scher-Zagier JK,Carlsson AE

更新日期：2016-12-20 00:00:00

abstract：:The bile acid-sensitive ion channel is activated by amphiphilic substances such as bile acids or artificial detergents via membrane alterations; however, the mechanism of membrane sensitivity of the bile acid-sensitive ion channel is not known. It has also not been systematically investigated whether other members of ...

journal_title：Biophysical journal

authors： Schmidt A,Alsop RJ,Rimal R,Lenzig P,Joussen S,Gervasi NN,Khondker A,Gründer S,Rheinstädter MC,Wiemuth D

更新日期：2018-03-27 00:00:00

abstract：:We successfully demonstrate the effectiveness of two-photon fluorescence cross-correlation spectroscopy (TPCCS) to study the complex binding stoichiometry of calmodulin (CaM) and Ca(2+)/CaM-dependent protein kinase II (CaMKII). Practical considerations are made for developing an intracellular cross-correlation assay, ...

journal_title：Biophysical journal

authors： Kim SA,Heinze KG,Bacia K,Waxham MN,Schwille P

更新日期：2005-06-01 00:00:00

abstract：:Magic-angle spinning nuclear magnetic resonance is well suited for the study of membrane proteins in the nativelike lipid environment. However, the natural cellular membrane is invariably more complex than the proteoliposomes most often used for solid-state NMR (SSNMR) studies, and differences may affect the structure...

journal_title：Biophysical journal

authors： Ward ME,Wang S,Munro R,Ritz E,Hung I,Gor'kov PL,Jiang Y,Liang H,Brown LS,Ladizhansky V

更新日期：2015-04-07 00:00:00

abstract：:The effects of cholesterol on the dynamics and the structural properties of two different spin probes, the sterol type CSL and the phospholipid type 16-PC, in POPC/cholesterol oriented multilayer model membranes were examined. Our results are consistent with a nonideal solution containing cholesterol-rich clusters cre...

journal_title：Biophysical journal

authors： Shin YK,Freed JH

更新日期：1989-03-01 00:00:00

abstract：:A single isolated sinoatrial pacemaker cell presents intrinsic interbeat interval (IBI) variability that is believed to result from the stochastic characteristics of the opening and closing processes of membrane ion channels. To our knowledge, a novel mathematical framework was developed in this work to address the ef...

journal_title：Biophysical journal

authors： Dvir H,Zlochiver S

更新日期：2015-03-10 00:00:00

abstract：:The time dependence of magnetic field effects on light absorption by triplet-state and radical ions in quinone-depleted reaction centers of Rhodopseudomonas sphaeroides strain R-26 has been investigated. Measurements on the time scale of the hyperfine interaction in the radical pair [(BChl)2+. ...BPh-.)] provided kine...

journal_title：Biophysical journal

authors： Ogrodnik A,Krüger HW,Orthuber H,Haberkorn R,Michel-Beyerle ME,Scheer H

更新日期：1982-07-01 00:00:00

abstract：:Ca2+ transport through mitochondrial Ca2+ uniporter is the primary Ca2+ uptake mechanism in respiring mitochondria. Thus, the uniporter plays a key role in regulating mitochondrial Ca2+. Despite the importance of mitochondrial Ca2+ to metabolic regulation and mitochondrial function, and to cell physiology and pathophy...

journal_title：Biophysical journal

authors： Dash RK,Qi F,Beard DA

更新日期：2009-02-18 00:00:00

abstract：:A new method is presented to describe the low shear rate behavior of blood. We observed the response of a thin layer of sedimenting blood to a graded shear stress in a wedge-shaped chamber. The method allows quantitation of the degree of phase separation between red cells and plasma, and extracts the yield stress of t...

journal_title：Biophysical journal

authors： Morris CL,Smith CM 2nd,Blackshear PL Jr

更新日期：1987-08-01 00:00:00

abstract：:The two glycosphingolipids galactosylceramide (GalC) and its sulfated form, cerebroside sulfate (CBS), are present at high concentrations in the multilayered myelin sheath and are involved in carbohydrate-carbohydrate interactions between the lipid headgroups. In order to study the structure of the complex of these tw...

journal_title：Biophysical journal

authors： Boggs JM,Menikh A,Rangaraj G

更新日期：2000-02-01 00:00:00

abstract：:Photosynthetic organisms drive their metabolism by converting light energy into an electrochemical gradient with high efficiency. This conversion depends on the diffusion of quinones within the membrane. In purple photosynthetic bacteria, quinones reduced by the reaction center (RC) diffuse to the cytochrome bc(1) com...

journal_title：Biophysical journal

authors： Scheuring S,Sturgis JN

更新日期：2006-11-15 00:00:00

abstract：:Nipah is an emerging paramyxovirus that is of serious concern to human health. It invades host cells using two of its membrane proteins-G and F. G binds to host ephrins and this stimulates G to activate F. Upon activation, F mediates virus-host membrane fusion. Here we focus on mechanisms that underlie the stimulation...

journal_title：Biophysical journal

authors： Dutta P,Siddiqui A,Botlani M,Varma S

更新日期：2016-10-18 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：:An analytical electromechanical model of a spherical cell exposed to an alternating electric field was used to calculate shear stress generated in the cellular membrane. Shape deformation of Neurospora crassa (slime) spheroplasts was measured. Statistical analysis permitted empirical evaluation of creep of the cellula...

journal_title：Biophysical journal

authors： Poznański J,Pawłowski P,Fikus M

更新日期：1992-03-01 00:00:00

abstract：:Multiple data are available on the self-assembly of mixtures of bilayer-forming amphiphiles, particularly phospholipids and micelle-forming amphiphiles, commonly denoted detergents. The structure of such mixed assemblies has been thoroughly investigated, described in phase diagrams, and theoretically rationalized in t...

journal_title：Biophysical journal

authors： Lichtenberg D,Ahyayauch H,Goñi FM

更新日期：2013-07-16 00:00:00

abstract：:Under various physiological and nonphysiological conditions, the intramembranous particles, as seen by freeze-fracture electron microscopy, may be in various degrees of aggregation. To compare various schemes for the measurement of the degree of aggregation, a computer program has been used to generate simulated aggre...

journal_title：Biophysical journal

authors： Donnell JT 2nd,Finegold LX

更新日期：1981-09-01 00:00:00

abstract：:To investigate the mechanisms by which vesicles of pulmonary surfactant adsorb to an air-liquid interface, we measured the effect of different phospholipids and of their concentration both in the subphase and at the interface on this process. Adsorbing vesicles contained the hydrophobic surfactant proteins mixed with ...

journal_title：Biophysical journal

authors： Walters RW,Jenq RR,Hall SB

更新日期：2000-01-01 00:00:00

abstract：:Many proteins "bind" DNA through positively charged amino acids on their surfaces. However, to overcome significant energetic and topological obstacles, proteins that bend or package DNA might also modulate the stiffness that is generated by repulsions between phosphates within DNA. Much previous work describes how io...

journal_title：Biophysical journal

authors： Podestà A,Indrieri M,Brogioli D,Manning GS,Milani P,Guerra R,Finzi L,Dunlap D

更新日期：2005-10-01 00:00:00

abstract：:Adsorption-desorption isotherms were obtained for water binding by 1,2-dimyristoylphosphatidylcholine in the temperature range 15 degrees-35 degrees C. The isotherms were analyzed by Brunauer et al.'s (BET) theory and also a polarization theory, the latter being more successful in fitting the data. There was some evid...

journal_title：Biophysical journal

authors： Wilkinson DA,Morowitz HJ,Prestegard JH

更新日期：1977-11-01 00:00:00

abstract：:Plexins are single-pass transmembrane receptors that bind the axon guidance molecules semaphorins. Single-pass transmembrane proteins are an important class of receptors that display a wide variety of activation mechanisms, often involving ligand-dependent dimerization or conformational changes. Resolving the activati...

journal_title：Biophysical journal

authors： Marita M,Wang Y,Kaliszewski MJ,Skinner KC,Comar WD,Shi X,Dasari P,Zhang X,Smith AW

更新日期：2015-11-03 00:00:00

abstract：:Recently, our understanding of the structural basis of troponin-tropomyosin's Ca2+-triggered regulation of striated muscle contraction has advanced greatly, particularly via cryo-electron microscopy data. Compelling atomic models of troponin-tropomyosin-actin were published for both apo- and Ca2+-saturated states of t...

journal_title：Biophysical journal

authors： Tobacman LS

更新日期：2021-01-05 00:00:00

abstract：:We have previously studied single, voltage-dependent, saxitoxin-(STX) blockable sodium channels from rat brain in planar lipid bilayers, and found that channel block by STX was voltage-dependent. Here we describe the effect of voltage on the degree of block and on the kinetics of the blocking reaction. From their volt...

journal_title：Biophysical journal

authors： French RJ,Worley JF 3rd,Krueger BK

更新日期：1984-01-01 00:00:00

abstract：:Despite the spontaneity of some in vitro protein-folding reactions, native folding in vivo often requires the participation of barrel-shaped multimeric complexes known as chaperonins. Although it has long been known that chaperonin substrates fold upon sequestration inside the chaperonin barrel, the precise mechanism ...

journal_title：Biophysical journal

authors： England JL,Pande VS

更新日期：2008-10-01 00:00:00