Photoproducts of bacteriorhodopsin mutants: a molecular dynamics study.

abstract：:The canonical mechanism of gramicidin (gA) channel formation is transmembrane dimerization of nonconducting subunits that reside in opposite bilayer leaflets. The channels do not open and close; they appear and disappear due to subunit association and dissociation. Many different types of experiments support this mono...

journal_title：Biophysical journal

authors： Lum K,Ingólfsson HI,Koeppe RE 2nd,Andersen OS

更新日期：2017-10-17 00:00:00

abstract：:The continuum and single jump treatments of ion transport through black lipid membranes predict experimentally distinguishable results, even when the same mechanistic assumptions are made and the same potential-distance profile is used. On the basis of steady-state current-voltage curves for nonactin-mediated transpor...

journal_title：Biophysical journal

authors： van Dijk C,de Levie R

更新日期：1985-07-01 00:00:00

abstract：:It is well known that electromagnetic fields cause mechanical forces. If one applies an electrical field to a suspension of microscopic particles, these particles realign themselves along the direction of the field and form pearl-chain-like aggregates. These chains are mostly single stranded but they are frequently mu...

journal_title：Biophysical journal

authors： Takashima S,Schwan HP

更新日期：1985-04-01 00:00:00

abstract：:The nuclear magnetic resonance (NMR) of water protons in live and glycerinated muscle, suspensions of glycerinated myofibrils, and solutions of several muscle proteins has been studied. T(1) and T(2), measured on partially hydrated proteins by pulsed spin-echo techniques, decreased as the ratio of water to protein dec...

journal_title：Biophysical journal

authors： Cooke R,Wien R

更新日期：1971-12-01 00:00:00

abstract：:Understanding cellular membrane processes is critical for the study of events such as viral entry, neurotransmitter exocytosis, and immune activation. Supported lipid bilayers are commonly used to model these membrane processes experimentally. Despite the relative simplicity of such a system, many important structural...

journal_title：Biophysical journal

authors： Kasson PM,Pande VS

更新日期：2004-06-01 00:00:00

abstract：:Shock waves are used clinically for breaking kidney stones and treating musculoskeletal indications. The mechanisms by which shock waves interact with tissue are still not well understood. Here, ultra-high-speed imaging was used to visualize the deformation of individual cells embedded in a tissue-mimicking phantom wh...

journal_title：Biophysical journal

authors： Li D,Pellegrino A,Hallack A,Petrinic N,Jérusalem A,Cleveland RO

更新日期：2018-03-27 00:00:00

abstract：:Helical beta-peptides have been shown to fold into well-defined structures. In aqueous solution, some beta-peptides self-assemble into nanoscale fibers, aggregates, and liquid crystalline phases. Molecular simulations, at an atomistic level, are used to examine, in a systematic manner, the interactions between distinc...

journal_title：Biophysical journal

authors： Miller CA,Gellman SH,Abbott NL,de Pablo JJ

更新日期：2009-06-03 00:00:00

abstract：:Oriented solid-state NMR in combination with multiple-residue-specific (15)N labeling and extensive numerical spectral analysis is proposed to determine helix conformations of large membrane proteins in native membranes. The method is demonstrated on uniaxially oriented samples of (15)N-methionine, -valine, and -glyci...

journal_title：Biophysical journal

authors： Vosegaard T,Kamihira-Ishijima M,Watts A,Nielsen NC

更新日期：2008-01-01 00:00:00

abstract：:Sum-frequency vibrational spectroscopy (SFVS) is used to measure the intrinsic rate of lipid flip-flop for 1,2-dimyristoyl-sn-glycero-3-phosphocholine (DMPC), 1,2-dipalmitoyl-sn-glycero-3-phosphocholine (DPPC), and 1,2-distearoyl-sn-glycero-3-phosphocholine (DSPC) in planar-supported lipid bilayers (PSs). Asymmetric P...

journal_title：Biophysical journal

authors： Liu J,Conboy JC

更新日期：2005-10-01 00:00:00

abstract：:Branched cable voltage recording and voltage clamp analytical solutions derived in two previous papers are used to explore practical issues concerning voltage clamp. Single exponentials can be fitted reasonably well to the decay phase of clamped synaptic currents, although they contain many underlying components. The ...

journal_title：Biophysical journal

authors： Major G

更新日期：1993-07-01 00:00:00

abstract：:Cellular processes are noisy due to the stochastic nature of biochemical reactions. As such, it is impossible to predict the exact quantity of a molecule or other attributes at the single-cell level. However, the distribution of a molecule over a population is often deterministic and is governed by the underlying regu...

journal_title：Biophysical journal

authors： Li B,You L

更新日期：2014-09-02 00:00:00

abstract：:Using a combination of microelectrode measurements and high-power microscopy we have demonstrated that different Donnan potentials can be recorded from the A- and I-bands of glycerinated and chemically skinned muscles in rigor, so that the A-band fixed charge concentration exceeds the I-band fixed charge concentration...

journal_title：Biophysical journal

authors： Bartels EM,Elliott GF

更新日期：1985-07-01 00:00:00

abstract：:Many membrane-bound molecules in cells form small clusters. It has been hypothesized that these clusters convert an analog extracellular signal into a digital intracellular signal and that this conversion increases signaling fidelity. However, the mechanism by which clusters digitize a signal and the subsequent effect...

journal_title：Biophysical journal

authors： Roob E 3rd,Trendel N,Rein Ten Wolde P,Mugler A

更新日期：2016-04-12 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

abstract：:Osmotic stress in the 0.5-5 x 10(6) dyne/cm2 range was used to perturb the hydration of actin-myosin-ATP intermediates during steady-state hydrolysis. Polyethylene glycol (PEG) (1000 to 4000 Da), in the 1 to 10 wt% range, which does not cause protein precipitation, did not significantly affect the apparent KM or the V...

journal_title：Biophysical journal

authors： Highsmith S,Duignan K,Cooke R,Cohen J

更新日期：1996-06-01 00:00:00

abstract：:This paper describes a molecular dynamics and molecular mechanics study of the solvation and selectivity of the narrow pore and vestibule region of a model-built structure for the voltage-gated sodium channel. The particular structure used was one proposed by Guy and Durell. However, many of the features we saw would ...

journal_title：Biophysical journal

authors： Singh C,Sankararamakrishnan R,Subramaniam S,Jakobsson E

更新日期：1996-11-01 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：:There is no methodology for the estimation of the dynamic features of large-molecular-weight RNAs in homogeneous physiological media. In this report, a luminescence anisotropy-based method using a long-lifetime luminescent oligonucleotide probe for the estimation of the dynamic features of large-molecular-weight RNA i...

journal_title：Biophysical journal

authors： Sakamoto T,Mahara A,Yamagata K,Iwase R,Yamaoka T,Murakami A

更新日期：2005-12-01 00:00:00

abstract：:The S4 transmembrane domain of the family of voltage-gated ion channels is generally thought to be the voltage sensor, whose translocation by an applied electric field produces the gating current. Experiments on hSkMI Na(+) channels and both Shaker and EAG K(+) channels indicate which S4 residues cross the membrane-so...

journal_title：Biophysical journal

authors： Lecar H,Larsson HP,Grabe M

更新日期：2003-11-01 00:00:00

abstract：:A theoretical framework is developed to study the dynamics of protein folding. The key insight is that the search for the native protein conformation is influenced by the rate r at which external parameters, such as temperature, chemical denaturant, or pH, are adjusted to induce folding. A theory based on this insight...

journal_title：Biophysical journal

authors： Lois G,Blawzdziewicz J,O'Hern CS

更新日期：2008-09-15 00:00:00

abstract：:A microscopic model of passive transverse mass transport of small solutes in the viable epidermal layer of human skin is formulated on the basis of a hexagonal array of cells (i.e., keratinocytes) bounded by 4-nm-thick, anisotropic lipid bilayers and separated by 1-μm layers of extracellular fluid. Gap junctions and t...

journal_title：Biophysical journal

authors： Nitsche JM,Kasting GB

更新日期：2013-05-21 00:00:00

abstract：:Chromatin is partitioned on multiple length scales into subcompartments that differ from each other with respect to their molecular composition and biological function. It is a key question how these compartments can form even though diffusion constantly mixes the nuclear interior and rapidly balances concentration gr...

journal_title：Biophysical journal

authors： Erdel F,Rippe K

更新日期：2018-05-22 00:00:00

abstract：:We characterized the effect of the first basepair on the conformational dynamics of the fluorescent dye Cy3 attached to the 5' end of double-stranded DNA using gaussian-mixture adaptive umbrella sampling simulations. In the simulations, the sampling of all five dihedral angles along the linker was enhanced, so that bo...

journal_title：Biophysical journal

authors： Spiriti J,Binder JK,Levitus M,van der Vaart A

更新日期：2011-02-16 00:00:00

abstract：:The pKa values of ionizable groups that lie between the active site region of bacteriorhodopsin (bR) and the extracellular surface of the protein are reported. Glu-204 is found to have an elevated pKa in the resting state of bR, suggesting that it corresponds to the proton-releasing group in bR. Its elevated pKa is pr...

journal_title：Biophysical journal

authors： Sampogna RV,Honig B

更新日期：1996-09-01 00:00:00

abstract：:Difference spectra between resting and excited nerve in the infrared region between 2000 and 1000 cm(-1) have been examined with a resolution of 0.5 cm(-1). Spectra were obtained with a modified Perkin-Elmer model 521 grating infrared spectrophotometer (Perkin-Elmer Corp., Instrument Div., Norwalk, Conn.), and the sig...

journal_title：Biophysical journal

authors： Sherebrin MH,MacClement BA,Franko AJ

更新日期：1972-08-01 00:00:00

abstract：:Object contrast is one of the most important parameters of macromolecular imaging. Low-voltage transmission electron microscopy has shown an increased atom contrast for carbon materials, indicating that amplitude contrast contributions increase at a higher rate than phase contrast and inelastic scattering. Here, we st...

journal_title：Biophysical journal

authors： Majorovits E,Angert I,Kaiser U,Schröder RR

更新日期：2016-02-23 00:00:00

abstract：:The presence of tryptophan residues as intrinsic fluorophores in most proteins makes them an obvious choice for fluorescence spectroscopic analyses of such proteins. Membrane proteins have been reported to have a significantly higher tryptophan content than soluble proteins. The role of tryptophan residues in the stru...

journal_title：Biophysical journal

authors： Chattopadhyay A,Mukherjee S,Rukmini R,Rawat SS,Sudha S

更新日期：1997-08-01 00:00:00

abstract：:Experimentally, short peptides have been shown to form amyloids similar to those of their parent proteins. Consequently, they present useful systems for studies of amyloid conformation. Here we simulate extensively the NFGAIL peptide, derived from the human islet amyloid polypeptide (residues 22-27). We simulate diffe...

journal_title：Biophysical journal

authors： Zanuy D,Ma B,Nussinov R

更新日期：2003-03-01 00:00:00

abstract：:The energy transfer and charge separation kinetics of a photosystem I (PS I) core particle of an antenna size of 100 chlorophyll/P700 has been studied by combined fluorescence and transient absorption kinetics with picosecond resolution. This is the first combined picosecond study of transient absorption and fluoresce...

journal_title：Biophysical journal

authors： Holzwarth AR,Schatz G,Brock H,Bittersmann E

更新日期：1993-06-01 00:00:00

abstract：:Odorant-induced currents in mammalian olfactory receptor neurons have proved difficult to obtain reliably using conventional whole-cell recording. By using a mathematical model of the electrical circuit of the patch and rest-of-cell, we demonstrate how cell-attached patch measurements can be used to quantitatively ana...

journal_title：Biophysical journal

authors： Chiu P,Lynch JW,Barry PH

更新日期：1997-03-01 00:00:00