A liquid diffraction analysis of sarcoplasmic reticulum. I. Compositional variation.

abstract：:Stochastic effects in gene expression may result in different physiological states of individual cells, with consequences for pathogen survival and artificial gene network design. We studied the contributions of a regulatory factor to gene expression noise in four basic mechanisms of negative gene expression control: ...

journal_title：Biophysical journal

authors： Komorowski M,Miekisz J,Kierzek AM

更新日期：2009-01-01 00:00:00

abstract：:Fluorescence correlation spectroscopy (FCS) is a sensitive and widely used technique for measuring diffusion. FCS data are conventionally modeled with a finite number of diffusing components and fit with a least-square fitting algorithm. This approach is inadequate for analyzing data obtained from highly heterogeneous...

journal_title：Biophysical journal

authors： Sengupta P,Garai K,Balaji J,Periasamy N,Maiti S

更新日期：2003-03-01 00:00:00

abstract：:The detection of the 1H NMR signal of myoglobin (Mb) in tissue opens an opportunity to examine its cellular diffusion property, which is central to its purported role in facilitating oxygen transport. In perfused myocardium the field-dependent transverse relaxation analysis of the deoxy Mb proximal histidyl NdeltaH in...

journal_title：Biophysical journal

authors： Wang D,Kreutzer U,Chung Y,Jue T

更新日期：1997-11-01 00:00:00

abstract：:We developed a model of the rat ventricular myocyte at room temperature to predict the relative effects of different mechanisms on the cause of the slow increase in force in response to a step change in muscle length. We performed simulations in the presence of stretch-dependent increases in flux through the Na(+)-H(+...

journal_title：Biophysical journal

authors： Niederer SA,Smith NP

更新日期：2007-06-01 00:00:00

abstract：:We present a two-component coarse-grained molecular-dynamics model for simulating the erythrocyte membrane. The proposed model possesses the key feature of combing the lipid bilayer and the erythrocyte cytoskeleton, thus showing both the fluidic behavior of the lipid bilayer and the elastic properties of the erythrocy...

journal_title：Biophysical journal

authors： Li H,Lykotrafitis G

更新日期：2012-01-04 00:00:00

abstract：:Molecular dynamics simulations of wild-type bacteriorhodopsin (bR) and of its D85N, D85T, D212N, and Y57F mutants have been carried out to investigate possible differences in the photoproducts of these proteins. For each mutant, a series of 50 molecular dynamics simulations of the photoisomerization and subsequent rel...

journal_title：Biophysical journal

authors： Humphrey W,Bamberg E,Schulten K

更新日期：1997-03-01 00:00:00

abstract：:The outer membrane (OM) of Gram-negative bacteria is composed of lipopolysaccharide (LPS) in the outer leaflet and phospholipids in the inner leaflet. The outer membrane protein H (OprH) of Pseudomonas aeruginosa provides an increased stability to the OMs by directly interacting with LPS. Here we report the influence ...

journal_title：Biophysical journal

authors： Lee J,Patel DS,Kucharska I,Tamm LK,Im W

更新日期：2017-01-24 00:00:00

abstract：:Atomistic molecular dynamics simulations are used to probe changes in the nature and subnanosecond dynamical behavior of solvation waters that accompany partial denaturation of the globular protein, human alpha-lactalbumin. A simulated ensemble of subcompact conformers, similar to the molten globule state of human alp...

journal_title：Biophysical journal

authors： Sengupta N,Jaud S,Tobias DJ

更新日期：2008-12-01 00:00:00

abstract：:Adenylate kinase, an enzyme that catalyzes the phosphoryl transfer between ATP and AMP, can interconvert between the open and catalytically potent (closed) forms even without binding ligands. Several aspects of the enzyme elasticity and internal dynamics are analyzed here by atomistic molecular dynamics simulations co...

journal_title：Biophysical journal

authors： Pontiggia F,Zen A,Micheletti C

更新日期：2008-12-15 00:00:00

abstract：:The blood stage malaria parasite, the merozoite, has a small window of opportunity during which it must successfully target and invade a human erythrocyte. The process of invasion is nonetheless remarkably rapid. To date, mechanistic models of invasion have focused predominantly on the parasite actomyosin motor contri...

journal_title：Biophysical journal

authors： Dasgupta S,Auth T,Gov NS,Satchwell TJ,Hanssen E,Zuccala ES,Riglar DT,Toye AM,Betz T,Baum J,Gompper G

更新日期：2014-07-01 00:00:00

abstract：:Cubic insulin crystals contain a binding site for monovalent cations in a cavity of the crystal dyad in which the bound cation is ligated by protein atomic dipoles and water molecules. These types of interaction are analogous to interactions that occur in small cation-selective carrier and channel molecules. X-ray dif...

journal_title：Biophysical journal

authors： Badger J,Kapulsky A,Gursky O,Bhyravbhatla B,Caspar DL

更新日期：1994-02-01 00:00:00

abstract：:We study the effect of ergosterol on the physical properties of 1-[(2)H(31)]palmitoyl-2-oleoyl-sn-glycero-3-phosphoethanolamine (POPE) multibilayers using deuterium nuclear magnetic resonance. NMR spectra were taken as a function of temperature and ergosterol concentration up to 70 mol %. The spectral first moments sh...

journal_title：Biophysical journal

authors： Hsueh YW,Weng CJ,Chen MT,Thewalt J,Zuckermann M

更新日期：2010-04-07 00:00:00

abstract：:The most probable source of force generation in muscle fibers in the rotation of the myosin head when bound to actin. This laboratory has demonstrated that ATP induces microsecond rotational motions of spin-labeled myosin heads bound to actin (Berger, C. L. E. C. Svensson, and D. D. Thomas. 1989. Proc. Natl. Acad. Sci...

journal_title：Biophysical journal

authors： Ostap EM,Thomas DD

更新日期：1991-06-01 00:00:00

abstract：:Calmodulin (CaM) is a highly flexible calcium-binding protein that mediates signal transduction through an ability to differentially bind to highly variable binding sequences in target proteins. To identify how binding affects CaM motions, and its relationship to conformational entropy and target peptide sequence, we ...

journal_title：Biophysical journal

authors： Smith DM,Straatsma TP,Squier TC

更新日期：2012-10-03 00:00:00

abstract：:Flagellin is the subunit of the bacterial filament, the micrometer-long propeller of a bacterial flagellum. The protein is believed to undergo unfolding for transport through the channel of the filament and to refold in a chamber at the end of the channel before being assembled into the growing filament. We report a t...

journal_title：Biophysical journal

authors： Chng CP,Kitao A

更新日期：2008-05-15 00:00:00

abstract：:Fundamental mechanisms governing cell size control and homeostasis are still poorly understood. The relationship between sizes at division and birth in single cells is used as a metric to categorize the basis of size homeostasis. Cells dividing at a fixed size regardless of birth size (sizer) are expected to show a di...

journal_title：Biophysical journal

authors： Facchetti G,Knapp B,Chang F,Howard M

更新日期：2019-11-05 00:00:00

abstract：:Erythrocytes were electrofused with multiple rectangular voltage pulses to show an oscillatory movement, divided into swell phases and pump events. During each swell phase, which lasted from 0.5 s to more than 180 s, the fused cells' (doublets') volume increased by colloid osmotic swelling, and the membrane area was e...

journal_title：Biophysical journal

authors： Baumann M

更新日期：1999-11-01 00:00:00

abstract：:Prion diseases are infectious fatal neurodegenerative diseases including Creutzfeldt-Jakob disease in humans and bovine spongiform encephalopathy in cattle. The misfolding and conversion of cellular PrP in such mammals into pathogenic PrP is believed to be the key procedure. Rabbits are among the few mammalian species...

journal_title：Biophysical journal

authors： Zhou Z,Yan X,Pan K,Chen J,Xie ZS,Xiao GF,Yang FQ,Liang Y

更新日期：2011-09-21 00:00:00

abstract：:The activator protein-1 transcription factor is a heterodimer containing one of each of the Fos and Jun subfamilies of basic-region leucine-zipper proteins. We have previously shown by fluorescence cross-correlation spectroscopy (FCCS) that the fluorescent fusion proteins Fos-EGFP and Jun-mRFP1, cotransfected in HeLa ...

journal_title：Biophysical journal

authors： Vámosi G,Baudendistel N,von der Lieth CW,Szalóki N,Mocsár G,Müller G,Brázda P,Waldeck W,Damjanovich S,Langowski J,Tóth K

更新日期：2008-04-01 00:00:00

abstract：:The analysis of peptide and protein partitioning in lipid membranes is of high relevance for the understanding of biomembrane function. We used statistical thermodynamics analysis to demonstrate the effect of peptide mixing behavior on heat capacity profiles of lipid membranes with the aim to predict peptide aggregati...

journal_title：Biophysical journal

authors： Ivanova VP,Makarov IM,Schäffer TE,Heimburg T

更新日期：2003-04-01 00:00:00

abstract：:Thermodynamically rigorous free energy methods in principle allow the exact computation of binding free energies in biological systems. Here, we use thermodynamic integration together with molecular dynamics simulations of a DNA-protein complex to compute relative binding free energies of a series of mutants of a prot...

journal_title：Biophysical journal

authors： Beierlein FR,Kneale GG,Clark T

更新日期：2011-09-07 00:00:00

abstract：:Here, we present a structural and dynamic description of CBP-ID4 at atomic resolution. ID4 is the fourth intrinsically disordered linker of CREB-binding protein (CBP). In spite of the largely disordered nature of CBP-ID4, NMR chemical shifts and relaxation measurements show a significant degree of α-helix sampling in ...

journal_title：Biophysical journal

authors： Piai A,Calçada EO,Tarenzi T,Grande AD,Varadi M,Tompa P,Felli IC,Pierattelli R

更新日期：2016-01-19 00:00:00

abstract：:Although the majority of free cellular cholesterol is present in the plasma membrane, cholesterol homeostasis is principally regulated through sterol-sensing proteins that reside in the cholesterol-poor endoplasmic reticulum (ER). In response to acute cholesterol loading or depletion, there is rapid equilibration betw...

journal_title：Biophysical journal

authors： Olsen BN,Bielska AA,Lee T,Daily MD,Covey DF,Schlesinger PH,Baker NA,Ory DS

更新日期：2013-10-15 00:00:00

abstract：:Cis-parinaric acid (PA) binds to a hydrophobic pocket formed between the heavy chain of myosin subfragment-1 (S1) and the 41-residue N-terminal of essential light chain 1 (A1). The binding is strong (Ka = 5.6 x 10(7) M-1) and rigid (polarization = 0.334). PA does not bind to myofibrils in which A1 has been extracted o...

journal_title：Biophysical journal

authors： Xiao M,Borejdo J

更新日期：1997-05-01 00:00:00

abstract：:Many traditional approaches to the analysis of sedimentation velocity data work poorly with data for low-molecular-weight solutes, which have sedimentation boundaries that are severely broadened by diffusion. An approach that has previously had some success is to directly fit these broad boundaries to approximate solu...

journal_title：Biophysical journal

authors： Philo JS

更新日期：1997-01-01 00:00:00

abstract：:We present MEMLET (MATLAB-enabled maximum-likelihood estimation tool), a simple-to-use and powerful program for utilizing maximum-likelihood estimation (MLE) for parameter estimation from data produced by single-molecule and other biophysical experiments. The program is written in MATLAB and includes a graphical user ...

journal_title：Biophysical journal

authors： Woody MS,Lewis JH,Greenberg MJ,Goldman YE,Ostap EM

更新日期：2016-07-26 00:00:00

abstract：:Cytotoxic lymphocytes are key elements of the immune system that are primarily responsible for targeting cells infected with intracellular pathogens, or cells that have become malignantly transformed. Target cells are killed mainly via lymphocyte exocytosis of specialized lysosomes containing perforin, a pore-forming ...

journal_title：Biophysical journal

authors： Woodsworth DJ,Dunsing V,Coombs D

更新日期：2015-08-04 00:00:00

abstract：:A simulation of the function of the human heart and heart muscle has been developed in the form of a digital computer code. For a given set of values for the input variables, realistic values of the cardiac output variables are predicted. A detailed discussion of the simulation and some results obtained from its appli...

journal_title：Biophysical journal

authors： Hanna WT

更新日期：1973-07-01 00:00:00

abstract：:Supercoiled DNA polymer models for which the torsional energy depends on the total twist of molecules (Tw) are a priori well suited for thermodynamic analysis of long molecules. So far, nevertheless, the exact determination of Tw in these models has been based on a computation of the writhe of the molecules (Wr) by ex...

journal_title：Biophysical journal

authors： Lepage T,Képès F,Junier I

更新日期：2015-07-07 00:00:00

abstract：:Saturation transfer electron paramagnetic resonance (ST-EPR) spectroscopy has been employed to characterize the very slow microsecond to millisecond rotational dynamics of a wide range of nitroxide spin-labeled proteins and other macromolecules in the past three decades. The vast majority of this previous work has bee...

journal_title：Biophysical journal

authors： Hustedt EJ,Beth AH

更新日期：2004-06-01 00:00:00