Theory for RNA folding, stretching, and melting including loops and salt.

abstract：:Many signaling pathways act through shared components, where different ligand molecules bind the same receptors or activate overlapping sets of response regulators downstream. Nevertheless, different ligands acting through cross-wired pathways often lead to different outcomes in terms of the target cell behavior and f...

journal_title：Biophysical journal

authors： Fathi S,Nayak CR,Feld JJ,Zilman AG

更新日期：2016-09-06 00:00:00

abstract：:Electrorotation of fixed red blood cells has been investigated in the frequency range between 16 Hz and 30 MHz. The rotation was studied as a function of electrolyte conductivity and surface charge density. Between 16 Hz and 1 kHz, fixed red blood cells undergo cofield rotation. The maximum of cofield rotation occurs ...

journal_title：Biophysical journal

authors： Georgieva R,Neu B,Shilov VM,Knippel E,Budde A,Latza R,Donath E,Kiesewetter H,Bäumler H

更新日期：1998-04-01 00:00:00

abstract：:The following arguments are presented for the observation that curves relating free Ca2+ and force development of thin filament regulated myofilaments of skinned muscle fibers have Hill coefficient (n) greater than 4, which is the number of Ca2+ binding sites on troponin: Activation of the myofilaments is a process re...

journal_title：Biophysical journal

authors： Shiner JS,Solaro RJ

更新日期：1984-10-01 00:00:00

abstract：:Actin is ubiquitous globular protein that polymerizes into filaments and forms networks that participate in the force generation of eukaryotic cells. Such forces are used for cell motility, cytokinesis, and tissue remodeling. Among those actin networks, we focus on the actin cortex, a dense branched network beneath th...

journal_title：Biophysical journal

authors： Bussonnier M,Carvalho K,Lemière J,Joanny JF,Sykes C,Betz T

更新日期：2014-08-19 00:00:00

abstract：:In wild-type lenses from various species, an intracellular hydrostatic pressure gradient goes from ∼340 mmHg in central fiber cells to 0 mmHg in surface cells. This gradient drives a center-to-surface flow of intracellular fluid. In lenses in which gap-junction coupling is increased, the central pressure is lower, whe...

journal_title：Biophysical journal

authors： Gao J,Sun X,White TW,Delamere NA,Mathias RT

更新日期：2015-11-03 00:00:00

abstract：:We report on the application of two photon molecular excitation to fluorescence correlation spectroscopy. We demonstrate the first fluorescence correlation spectroscopy measurements of translational mobility in the cytoplasm of living cells. Two-photon excitation inherently excites small sample volumes in three dimens...

journal_title：Biophysical journal

authors： Berland KM,So PT,Gratton E

更新日期：1995-02-01 00:00:00

abstract：:Cholesterol is an important risk factor of atherosclerosis, due to its active uptake by monocytes/macrophages. Monocyte recruitment from flowing blood to atherosclerotic foci is the key first step in the development of atherosclerosis. Cholesterol content alters cell membrane stiffness, and lateral lipid and protein d...

journal_title：Biophysical journal

authors： Saha AK,Osmulski P,Dallo SF,Gaczynska M,Huang TH,Ramasubramanian AK

更新日期：2017-04-11 00:00:00

abstract：:Detection algorithms are widely used for the analysis of single-channel data because they remove the background noise from the measured current signal and reconstruct the noise-free time series. Standard detection algorithms assume channels switching only between zero and full conductance. Many types of channels, howe...

journal_title：Biophysical journal

authors： Draber S,Schultze R

更新日期：1994-10-01 00:00:00

abstract：:The GroE chaperonin system facilitates protein folding in an ATP-dependent manner. It has remained unclear why some proteins are obligate clients of the GroE system, whereas other closely related proteins are able to fold efficiently in its absence. Factors that cause folding to be slower affect kinetic partitioning b...

journal_title：Biophysical journal

authors： Bandyopadhyay B,Mondal T,Unger R,Horovitz A

更新日期：2019-01-08 00:00:00

abstract：:Time courses of myelin lattice swelling in toad sciatic nerves preexposed to different treatments were determined by x-ray diffraction using a one-dimensional position-sensitive detector. In the nerves supramaximally stimulated for 1 h at 200 Hz, the subsequent process of myelin swelling occurred 45.0 +/- 7.3 min (n =...

journal_title：Biophysical journal

authors： Padrón R,Mateu L

更新日期：1982-08-01 00:00:00

abstract：:A 10-ns molecular dynamics simulation of mouse acetylcholinesterase was analyzed, with special attention paid to the fluctuation in the width of the gorge and opening events of the back door. The trajectory was first verified to ensure its stability. We defined the gorge proper radius as the measure for the extent of ...

journal_title：Biophysical journal

authors： Tai K,Shen T,Börjesson U,Philippopoulos M,McCammon JA

更新日期：2001-08-01 00:00:00

abstract：:The diffusion of plastoquinol and its binding to the cytochrome bf complex, which occurs during linear photosynthetic electron transport and is analogous to reaction sequences found in most energy-converting membranes, has been studied in intact thylakoid membranes. The flash-induced electron transfer between the late...

journal_title：Biophysical journal

authors： Mitchell R,Spillmann A,Haehnel W

更新日期：1990-10-01 00:00:00

abstract：:Perfusion is one of the most important processes maintaining organ health. From a computational perspective, however, perfusion is among the least-studied physiological processes of the heart. The recent development of novel nanoparticle-based targeted cardiac therapy calls for novel simulation methods that can provid...

journal_title：Biophysical journal

authors： Diem AK,Valen-Sendstad K

更新日期：2019-12-17 00:00:00

abstract：:The design and implementation of a high-speed, random-access, laser-scanning fluorescence microscope configured to record fast physiological signals from small neuronal structures with high spatiotemporal resolution is presented. The laser-scanning capability of this nonimaging microscope is provided by two orthogonal...

journal_title：Biophysical journal

authors： Bullen A,Patel SS,Saggau P

更新日期：1997-07-01 00:00:00

abstract：:We describe Franck-Condon simulations of vibrational cooling effects on absorption difference spectra in chlorophyll a (Chl a). The relative contributions of vibrational equilibration in the electronic ground and excited states depend on the pump and probe wavelengths. For Franck-Condon-active vibrational modes exhibi...

journal_title：Biophysical journal

authors： Struve WS

更新日期：1995-12-01 00:00:00

abstract：:Juxtacrine signaling is an important class of signaling systems that plays a crucial role in various developmental processes ranging from coordination of differentiation between neighboring cells to guiding axon growth during neurogenesis. Such signaling systems rely on the interaction between receptors on one cell an...

journal_title：Biophysical journal

authors： Yaron T,Cordova Y,Sprinzak D

更新日期：2014-11-18 00:00:00

abstract：:Formation of the inverted hexagonal (H(II)) phase from the lamellar (L(alpha)) phase of bovine brain-extracted phosphatidylcholine (BBPC) and phosphatidylethanolamine (BBPE) was investigated using 31P-NMR with or without cholesterol. When the ratio of BBPC to BBPE was 1:1, the H(II) formation was observed in the prese...

journal_title：Biophysical journal

authors： Hayakawa E,Naganuma M,Mukasa K,Shimozawa T,Araiso T

更新日期：1998-02-01 00:00:00

abstract：:The piezoelectric properties of single collagen type I fibrils in fascia were imaged with sub-20 nm spatial resolution using piezoresponse force microscopy. A detailed analysis of the piezoresponse force microscopy signal in controlled tip-fibril geometry revealed shear piezoelectricity parallel to the fibril axis. Th...

journal_title：Biophysical journal

authors： Harnagea C,Vallières M,Pfeffer CP,Wu D,Olsen BR,Pignolet A,Légaré F,Gruverman A

更新日期：2010-06-16 00:00:00

abstract：:The formation and function of the mitotic spindle depends upon force generation by multiple molecular motors and by the dynamics of microtubules, but how these force-generating mechanisms relate to one another is unclear. To address this issue we have modeled the separation of spindle poles as a function of time durin...

journal_title：Biophysical journal

authors： Cytrynbaum EN,Scholey JM,Mogilner A

更新日期：2003-02-01 00:00:00

abstract：:In many situations, cell-cell adhesion is mediated by multiple ligand-receptor pairs. For example, the interaction between T cells and antigen-presenting cells of the immune system is mediated not only by T cell receptors and their ligands (peptide-major histocompatibility complex) but also by binding of intracellular...

journal_title：Biophysical journal

authors： Coombs D,Dembo M,Wofsy C,Goldstein B

更新日期：2004-03-01 00:00:00

abstract：:A significant amount of work has been devoted to obtaining a detailed atomistic knowledge of the human hemoglobin mechanism. Despite this impressive research, to date, the ligand diffusion processes remain unclear and controversial. Using recently developed computational techniques, PELE, we are capable of addressing ...

journal_title：Biophysical journal

authors： Lucas MF,Guallar V

更新日期：2012-02-22 00:00:00

abstract：:Small, icosahedral double-stranded DNA bacteriophage pack their genomes tightly into preformed protein capsids using an ATP-driven motor. Coarse-grain molecular-mechanics models provide a detailed picture of DNA packaging in bacteriophage, revealing how conformation depends on capsid size and shape, and the presence o...

journal_title：Biophysical journal

authors： Petrov AS,Harvey SC

更新日期：2008-07-01 00:00:00

abstract：:The cytoplasmic surface of the BR (initial) state of bacteriorhodopsin is characterized by a cluster of three carboxylates that function as a proton-collecting antenna. Systematic replacement of most of the surface carboxylates indicated that the cluster is made of D104, E161, and E234 (Checover, S., Y. Marantz, E. Na...

journal_title：Biophysical journal

authors： Nachliel E,Gutman M,Tittor J,Oesterhelt D

更新日期：2002-07-01 00:00:00

abstract：:The separation method, flow field-flow fractionation (flow FFF), is coupled on-line with multiangle laser light scattering (MALLS) for simultaneous measurement of the size and concentration of vesicles eluting continuously from the fractionator. These size and concentration data, gathered as a function of elution time...

journal_title：Biophysical journal

authors： Korgel BA,van Zanten JH,Monbouquette HG

更新日期：1998-06-01 00:00:00

abstract：:Properties of filamentous acetamidofluorescein-labeled actin and acetamidotetramethylrhodamine-labeled actin (AF and ATR-actin, respectively) were examined to resolve discrepancies in the reported translational diffusion coefficients of F-actin measured in vitro by FPR and other techniques. Using falling-ball viscomet...

journal_title：Biophysical journal

authors： Simon JR,Gough A,Urbanik E,Wang F,Lanni F,Ware BR,Taylor DL

更新日期：1988-11-01 00:00:00

abstract：:We present here the parmbsc0 force field, a refinement of the AMBER parm99 force field, where emphasis has been made on the correct representation of the alpha/gamma concerted rotation in nucleic acids (NAs). The modified force field corrects overpopulations of the alpha/gamma = (g+,t) backbone that were seen in long ...

journal_title：Biophysical journal

authors： Pérez A,Marchán I,Svozil D,Sponer J,Cheatham TE 3rd,Laughton CA,Orozco M

更新日期：2007-06-01 00:00:00

abstract：:The lateral distribution of N-[10(1-pyrenyl)decanoyl]-sphingomyelin (PyrSPM) and N-[10(1-pyrenyl)decanoyl]-glucocerebroside (PyrGlcCer) was studied in multilamellar vesicles of 1,2-dipalmitoyl-, 1,2-dimyristoyl-, and 1-palmitoyl-2-oleoyl-phosphatidylcholine (DPPC, DMPC, and POPC, respectively) under anaerobic conditio...

journal_title：Biophysical journal

authors： Hresko RC,Sugár IP,Barenholz Y,Thompson TE

更新日期：1987-05-01 00:00:00

abstract：:Myelin basic protein (MBP) is predominantly found in the membranes of the myelin sheath of the central nervous system and is involved in important protein-protein and protein-lipid interactions in vivo and in vitro. Furthermore, divalent transition metal ions, especially Zn(2+) and Cu(2+), seem to directly affect the ...

journal_title：Biophysical journal

authors： Bund T,Boggs JM,Harauz G,Hellmann N,Hinderberger D

更新日期：2010-11-03 00:00:00

abstract：:The addition of 10(-3) M p-chloromercuribenzene sulfonate (PCMBS) to the solution bathing the mucosal surface of rabbit colon has no effect on the rate of active Na transport but blocks or reverses the inhibitory action of amiloride. The tissue must be exposed to PCMBS for 20-30 min for a complete blocking effect, and...

journal_title：Biophysical journal

authors： Gottlieb GP,Turnheim K,Frizzell RA,Schultz SG

更新日期：1978-04-01 00:00:00

abstract：:The pore-forming alpha 1 subunit of L-type calcium (Ca2+) channels is the molecular target of Ca2+ channel blockers such as phenylalkylamines (PAAs). Association and dissociation rates of (-)devapamil were compared for a highly PAA-sensitive L-type Ca2+ channel chimera (Lh) and various class A Ca2+ channel mutants. Th...

journal_title：Biophysical journal

authors： Degtiar VE,Aczél S,Döring F,Timin EN,Berjukow S,Kimball D,Mitterdorfer J,Hering S

更新日期：1997-07-01 00:00:00