Small- and large-scale conformational changes of adenylate kinase: a molecular dynamics study of the subdomain motion and mechanics.

abstract：:Voltage-gated sodium channels undergo transitions between open, closed, and inactivated states, enabling regulation of the translocation of sodium ions across membranes. A recently published crystal structure of the full-length prokaryotic NavMs crystal structure in the activated open conformation has revealed the pre...

journal_title：Biophysical journal

authors： Ke S,Ulmschneider MB,Wallace BA,Ulmschneider JP

更新日期：2018-11-20 00:00:00

abstract：:We have explored the electromechanical properties of DNA on a nanometer-length scale using an electric field to force single molecules through synthetic nanopores in ultrathin silicon nitride membranes. At low electric fields, E < 200 mV/10 nm, we observed that single-stranded DNA can permeate pores with a diameter >/...

journal_title：Biophysical journal

authors： Heng JB,Aksimentiev A,Ho C,Marks P,Grinkova YV,Sligar S,Schulten K,Timp G

更新日期：2006-02-01 00:00:00

abstract：:The state of photosystem II core complex (PS II CC) in monolayer at the gas-water interface was investigated using in situ polarization-modulated infrared reflection absorption spectroscopy and x-ray reflectivity techniques. Two approaches for preparing and manipulating the monolayers were examined and compared. In th...

journal_title：Biophysical journal

authors： Gallant J,Desbat B,Vaknin D,Salesse C

更新日期：1998-12-01 00:00:00

abstract：:The rat connexin40 gap junction channel is permeable to monovalent cations including tetramethylammonium and tetraethylammonium ions. Larger tetraalkyammonium (TAA(+)) ions beginning with tetrabutylammonium (TBA(+)) reduced KCl junctional currents disproportionately. Ionic blockade by tetrapentylammonium (TPeA(+)) and...

journal_title：Biophysical journal

authors： Musa H,Gough JD,Lees WJ,Veenstra RD

更新日期：2001-12-01 00:00:00

abstract：:To study possible structural changes in weak cross-bridge attachment to actin upon activation of the thin filament, two-dimensional (2D) x-ray diffraction patterns of skinned fibers from rabbit psoas muscle were recorded at low and high calcium concentration in the presence of saturating concentrations of MgATPgammaS,...

journal_title：Biophysical journal

authors： Kraft T,Xu S,Brenner B,Yu LC

更新日期：1999-03-01 00:00:00

abstract：:Immature human immunodeficiency virus (HIV) virions have a lattice of Gag and Gag-Pol proteins anchored to the lumen of their envelope. Using electron microscopy, we demonstrate that HIV virus-like particles (VLPs) assembled by the viral protein Gag and tagged at its C-terminus with the fluorescent protein Dendra2 hav...

journal_title：Biophysical journal

authors： Saha I,Saffarian S

更新日期：2020-08-04 00:00:00

abstract：:Nucleoprotein filament formation by recombinases is central to homologous recombination. To follow this process, we used fluorescent human Rad51 recombinase to visualize the interactions with double-stranded DNA (dsDNA). Fluorescence imaging revealed that Rad51 filament formation on dsDNA initiates from multiple nucle...

journal_title：Biophysical journal

authors： Mameren Jv,Modesti M,Kanaar R,Wyman C,Wuite GJ,Peterman EJ

更新日期：2006-10-15 00:00:00

abstract：:We propose an improved version of variable-angle total internal reflection fluorescence microscopy (vaTIRFM) adapted to modern TIRF setup. This technique involves the recording of a stack of TIRF images, by gradually increasing the incident angle of the light beam on the sample. A comprehensive theory was developed to...

journal_title：Biophysical journal

authors： Cardoso Dos Santos M,Déturche R,Vézy C,Jaffiol R

更新日期：2016-09-20 00:00:00

abstract：:It is well known that the dsDNA molecule undergoes a phase transition from B-DNA into an overstretched state at high forces. For some time, the structure of the overstretched state remained unknown and highly debated, but recent advances in experimental techniques have presented evidence of more than one possible phas...

journal_title：Biophysical journal

authors： Argudo D,Purohit PK

更新日期：2014-11-04 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：:Phase-resolved monitoring of photoacoustic signals can provide information about the depth profile of a sample. We describe an application of this principle to determine the depth profiles of ligands and antitumor agents in mammalian cells. Measurements of the in-phase and quadrature components of the photoacoustic sp...

journal_title：Biophysical journal

authors： Narayanan K,Chandani S,Ramakrishna T,Rao CM

更新日期：1997-05-01 00:00:00

abstract：:Chromatin organization within the nucleus is a vital regulator of genome function, yet its mechanical coupling to the nuclear architecture has remained elusive. To directly investigate this coupling, we locally modulated chromatin structure in living cells using nanoparticle-based laser perturbation. Unusual differenc...

journal_title：Biophysical journal

authors： Mazumder A,Shivashankar GV

更新日期：2007-09-15 00:00:00

abstract：:The amyloid fibrillar form of the protein Tau is involved in a number of neurodegenerative diseases, also known as tauopathies. In this work, six different fibrillar Tau isoforms were assembled in vitro. The morphological and nanomechanical properties of these isoforms were studied using atomic force microscopy at hig...

journal_title：Biophysical journal

authors： Makky A,Bousset L,Madiona K,Melki R

更新日期：2020-12-15 00:00:00

abstract：:Formation of amyloid oligomers, the most toxic species of amyloids in degenerative diseases, is critically coupled to the interplay with surrounding water. The hydrophobic force driving the oligomerization causes water removal from interfaces, changing the surface-hydration properties. Here, we show that such effects ...

journal_title：Biophysical journal

authors： Walton JH,Berry RS,Despa F

更新日期：2011-05-04 00:00:00

abstract：:The influence of electrostatic multipole moments up to hexadecapole on the dynamics of photodissociated carbon monoxide (CO) in myoglobin is investigated. The CO electrostatic potential is expressed as an expansion into atomic multipole moments of increasing order up to octopole which are obtained from a distributed m...

journal_title：Biophysical journal

authors： Plattner N,Meuwly M

更新日期：2008-04-01 00:00:00

abstract：:Antifreeze proteins (AFPs) protect certain organisms from freezing by adhering to ice crystals, thereby preventing their growth. All AFPs depress the nonequilibrium freezing temperature below the melting point; however AFPs from overwintering insects, such as the spruce budworm (sbw) are 10-100 times more effective th...

journal_title：Biophysical journal

authors： Pertaya N,Marshall CB,Celik Y,Davies PL,Braslavsky I

更新日期：2008-07-01 00:00:00

abstract：:We introduce dual-color time-integrated fluorescence cumulant analysis (TIFCA) to analyze fluorescence fluctuation spectroscopy data. Dual-color TIFCA utilizes the bivariate cumulants of the integrated fluorescent intensity from two detection channels to extract the brightness in each channel, the occupation number, a...

journal_title：Biophysical journal

authors： Wu B,Chen Y,Müller JD

更新日期：2006-10-01 00:00:00

abstract：:Experimental studies have recently demonstrated that fluorescence emission can be quenched by laser light pulses from modern high repetition rate lasers, a phenomenon we call "light quenching." We now describe the theory of light quenching and some of its effects on the steady-state and time-resolved intensity and ani...

journal_title：Biophysical journal

authors： Kuśba J,Bogdanov V,Gryczynski I,Lakowicz JR

更新日期：1994-11-01 00:00:00

abstract：:A potassium-selective, chemically excitable channel, whose characteristics cannot be accurately described by constant-field theory, is studied by a new approach based on diffusion theory but with no need for the classical assumptions of constant field, homogeneous membrane, and equal phase-boundary potentials at both ...

journal_title：Biophysical journal

authors： Schwartz TL,Kado RT

更新日期：1977-06-01 00:00:00

abstract：:Annelids possess giant extracellular oxygen carriers that exhibit a hexagonal bilayer appearance and have molecular masses of approximately 3.5 MDa. By small angle x-ray scattering (SAXS), Eudistylia vancouverii chlorocruorin and Macrobdella decora hemoglobin were investigated in solution. On the basis of the experime...

journal_title：Biophysical journal

authors： Krebs A,Durchschlag H,Zipper P

更新日期：2004-08-01 00:00:00

abstract：:The organization of filamentous actin and myosin II molecular motor contractility is known to modify the mechanical properties of the cell cortical actomyosin cytoskeleton. Here we describe a novel method, to our knowledge, for using force spectroscopy approach curves with tipless cantilevers to determine the actomyos...

journal_title：Biophysical journal

authors： Cartagena-Rivera AX,Logue JS,Waterman CM,Chadwick RS

更新日期：2016-06-07 00:00:00

abstract：:In this paper, we consider the effect of adding small carbohydrate solutes (small sugars) to DMPC (1,2-dimyristoyl-sn-glycero-3-phosphocholine) L(alpha) dispersions and the consequences on the force balance at zero osmotic pressure (maximal swelling). We show the importance of long incubations required to obtain sampl...

journal_title：Biophysical journal

authors： Demé B,Dubois M,Zemb T

更新日期：2002-01-01 00:00:00

abstract：:The energy transfer processes between carotenoids and Chls have been studied by femtosecond transient absorption in the CP29-WT complex, which contains only two carotenoids per polypeptide located in the L1 and L2 sites, and in the CP29-E166V mutant in which only the L1 site is occupied. The comparison of these two sa...

journal_title：Biophysical journal

authors： Croce R,Müller MG,Caffarri S,Bassi R,Holzwarth AR

更新日期：2003-04-01 00:00:00

abstract：:The regulated ability of integrin alphaIIbbeta3 to bind fibrinogen plays a crucial role in platelet aggregation and hemostasis. We have developed a model system based on laser tweezers, enabling us to measure specific rupture forces needed to separate single receptor-ligand complexes. First of all, we performed a thor...

journal_title：Biophysical journal

authors： Litvinov RI,Bennett JS,Weisel JW,Shuman H

更新日期：2005-10-01 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：:Loss of myelin in the central nervous system (CNS) leads to debilitating neurological deficits. High-resolution optical imaging of myelin in the CNS of animal models is limited by a lack of in vivo myelin labeling strategies. We demonstrated that third harmonic generation (THG) microscopy-a coherent, nonlinear, dye-fr...

journal_title：Biophysical journal

authors： Farrar MJ,Wise FW,Fetcho JR,Schaffer CB

更新日期：2011-03-02 00:00:00

abstract：:Several strategies directed toward increasing the participation of minority students in physics and biophysics are presented. Since the number of minority students entering college with an interest in science and mathematics must be increased if we expect to see more students graduating in science, several programs ai...

journal_title：Biophysical journal

authors： Tanaka JC,Gladney LD

更新日期：1993-07-01 00:00:00

abstract：:Proton translocation activity of bacteriorhodopsin mutants lacking the proton acceptor Asp-85 was investigated using the black lipid membrane technique. Mutants D85N, D85T, and D85,96N were constructed and homologously expressed in Halobacterium salinarium to yield a membrane fraction with a buoyant density of 1.18 g/...

journal_title：Biophysical journal

authors： Tittor J,Schweiger U,Oesterhelt D,Bamberg E

更新日期：1994-10-01 00:00:00

abstract：:PSII catalyzes the oxidation of water and reduction of plastoquinone in oxygenic photosynthesis. PSII contains an oxygen-evolving complex, which is located on the lumenal side of the PSII reaction center and which contains manganese, calcium, and chloride. Four sequential photooxidation reactions are required to gener...

journal_title：Biophysical journal

authors： De Riso A,Jenson DL,Barry BA

更新日期：2006-09-01 00:00:00

abstract：:The inositol (1,4,5)-trisphosphate receptor (InsP(3)R) is an intracellular calcium (Ca(2+)) release channel that plays a crucial role in cell signaling. In Drosophila melanogaster a single InsP(3)R gene (itpr) encodes a protein (DmInsP(3)R) that is approximately 60% conserved with mammalian InsP(3)Rs. A number of itpr...

journal_title：Biophysical journal

authors： Srikanth S,Wang Z,Tu H,Nair S,Mathew MK,Hasan G,Bezprozvanny I

更新日期：2004-06-01 00:00:00