Information-theoretic significance of Gibbs energy supply to editing mechanisms.


:If a branched multistep editing mechanism is implemented by an enzyme with a single site for the specific substrates, there is no reason to believe that the number of testing steps is fixed and cannot be controlled by some external factors. The paper considers the mechanisms of single- or multistep editing done in response to various factors, particularly to the value of displacement from the reaction equilibrium. To avoid a complicated analysis of a fully specified case, which would be likely to obscure the general significant features, the operating modes of those mechanisms are estimated using the method of minimizing associated information gains. It turns out that sufficiently far from equilibrium the variable mechanisms can essentially operate just as well as the fixed multistep mechanisms.


Biophys J


Biophysical journal


Kremen A




Has Abstract


1982-11-01 00:00:00














  • Increasing sensitivity of Ca2+ spark detection in noisy images by application of a matched-filter object detection algorithm.

    abstract::Microscopic calcium (Ca2+) events (such as Ca2+ sparks) are an important area for study, as they help clarify the mechanism(s) underlying intracellular signaling. In the heart, Ca2+ sparks occur as a result of Ca2+ release from the sarcoendoplasmic reticulum, via ryanodine receptor channels. Measurement of Ca2+ spark ...

    journal_title:Biophysical journal

    pub_type: 杂志文章


    authors: Kong CH,Soeller C,Cannell MB

    更新日期:2008-12-15 00:00:00

  • Quantitative scattering of melanin solutions.

    abstract::The optical scattering coefficient of a dilute, well-solubilized eumelanin solution has been accurately measured as a function of incident wavelength, and found to contribute <6% of the total optical attenuation between 210 and 325 nm. At longer wavelengths (325-800 nm), the scattering was less than the minimum sensit...

    journal_title:Biophysical journal

    pub_type: 杂志文章


    authors: Riesz J,Gilmore J,Meredith P

    更新日期:2006-06-01 00:00:00

  • Structural characterization of apomyoglobin self-associated species in aqueous buffer and urea solution.

    abstract::The biophysical characterization of nonfunctional protein aggregates at physiologically relevant temperatures is much needed to gain deeper insights into the kinetic and thermodynamic relationships between protein folding and misfolding. Dynamic and static laser light scattering have been employed for the detection an...

    journal_title:Biophysical journal

    pub_type: 杂志文章


    authors: Chow C,Kurt N,Murphy RM,Cavagnero S

    更新日期:2006-01-01 00:00:00

  • The donnan equilibrium: a theoretical study of the effects of interionic forces.

    abstract::We investigate the conditions under which nonideality in solution influences the Donnan equilibrium. Of the various parameters that characterize this equilibrium, the osmotic pressure established across the Donnan membrane is found to be particularly sensitive to intermolecular interactions between the diffusible and ...

    journal_title:Biophysical journal

    pub_type: 杂志文章


    authors: Stell G,Joslin CG

    更新日期:1986-11-01 00:00:00

  • Surface rheology and adsorption kinetics reveal the relative amphiphilicity, interfacial activity, and stability of human exchangeable apolipoproteins.

    abstract::Exchangeable apolipoproteins are located in the surface of lipoprotein particles and regulate lipid metabolism through direct protein-protein and protein-lipid interactions. These proteins are characterized by the presence of tandem repeats of amphiphatic alpha-helix segments and a high surface activity in monolayers ...

    journal_title:Biophysical journal

    pub_type: 杂志文章


    authors: Bolanos-Garcia VM,Renault A,Beaufils S

    更新日期:2008-03-01 00:00:00

  • From Gene to Function: Cell-Free Electrophysiological and Optical Analysis of Ion Pumps in Nanodiscs.

    abstract::Nanodiscs that hold a lipid bilayer surrounded by a boundary of scaffold proteins have emerged as a powerful tool for membrane protein solubilization and analysis. By combining nanodiscs and cell-free expression technologies, even completely detergent-free membrane protein characterization protocols can be designed. N...

    journal_title:Biophysical journal

    pub_type: 杂志文章


    authors: Henrich E,Sörmann J,Eberhardt P,Peetz O,Mezhyrova J,Morgner N,Fendler K,Dötsch V,Wachtveitl J,Bernhard F,Bamann C

    更新日期:2017-09-19 00:00:00

  • Dynamic studies of scaffold-dependent mating pathway in yeast.

    abstract::The mating pathway in Saccharomyces cerevisiae is one of the best understood signal transduction pathways in eukaryotes. It transmits the mating signal from plasma membrane into the nucleus through the G-protein coupled receptor and the mitogen-activated protein kinase (MAPK) cascade. According to current understandin...

    journal_title:Biophysical journal

    pub_type: 杂志文章


    authors: Shao D,Zheng W,Qiu W,Ouyang Q,Tang C

    更新日期:2006-12-01 00:00:00

  • Protein fibrillation lag times during kinetic inhibition.

    abstract::Protein aggregation is linked to more than 30 human pathologies, including Alzheimer's and Parkinson's diseases. Since small oligomers that form at the beginning of the fibrillation process probably are the most toxic elements, therapeutic strategies involving fibril fragmentation could be detrimental. An alternative ...

    journal_title:Biophysical journal

    pub_type: 杂志文章


    authors: Pagano RS,López Medus M,Gómez GE,Couto PM,Labanda MS,Landolfo L,D'Alessio C,Caramelo JJ

    更新日期:2014-08-05 00:00:00

  • Retrograde NGF axonal transport--motor coordination in the unidirectional motility regime.

    abstract::We present a detailed motion analysis of retrograde nerve growth factor (NGF) endosomes in axons to show that mechanical tugs-of-war and intracellular motor regulation are complimentary features of the near-unidirectional endosome directionality. We used quantum dots to fluorescently label NGF and acquired trajectorie...

    journal_title:Biophysical journal

    pub_type: 杂志文章


    authors: Chowdary PD,Che DL,Zhang K,Cui B

    更新日期:2015-06-02 00:00:00

  • Balance of Active, Passive, and Anatomical Cardiac Properties in Doxorubicin-Induced Heart Failure.

    abstract::Late-onset heart failure (HF) is a known side effect of doxorubicin chemotherapy. Typically, patients are diagnosed when already at an irreversible stage of HF, which allows few or no treatment options. Identifying the causes of compromised cardiac function in this patient group may improve early patient diagnosis and...

    journal_title:Biophysical journal

    pub_type: 杂志文章


    authors: Lewalle A,Land S,Merken JJ,Raafs A,Sepúlveda P,Heymans S,Kleinjans J,Niederer SA

    更新日期:2019-12-17 00:00:00

  • Asymmetrical membranes and surface tension.

    abstract::The (31)P-nuclear magnetic resonance chemical shift of phosphatidic acid in a membrane is sensitive to the lipid head group packing and can report qualitatively on membrane lateral compression near the aqueous interface. We have used high-resolution (31)P-nuclear magnetic resonance to evaluate the lateral compression ...

    journal_title:Biophysical journal

    pub_type: 杂志文章


    authors: Traïkia M,Warschawski DE,Lambert O,Rigaud JL,Devaux PF

    更新日期:2002-09-01 00:00:00

  • Effects of codon distributions and tRNA competition on protein translation.

    abstract::Translation is a central cellular process and the complexity of its mechanism necessitates mathematical frameworks to better understand system properties and make quantitative predictions. We have developed a gene sequence-specific mechanistic model for translation which accounts for all the elementary steps of transl...

    journal_title:Biophysical journal

    pub_type: 杂志文章


    authors: Zouridis H,Hatzimanikatis V

    更新日期:2008-08-01 00:00:00

  • Laser-Activated Polymeric Microcapsules for Ultrasound Imaging and Therapy: In Vitro Feasibility.

    abstract::Polymeric microcapsules with a light-absorbing dye incorporated in their shell can generate vapor microbubbles that can be spatiotemporally controlled by pulsed laser irradiation. These contrast agents of 6-8 μm in diameter can circulate through the vasculature, offering possibilities for ultrasound (molecular) imagin...

    journal_title:Biophysical journal

    pub_type: 杂志文章


    authors: Lajoinie G,van Rooij T,Skachkov I,Blazejewski E,Veldhuis G,de Jong N,Kooiman K,Versluis M

    更新日期:2017-05-09 00:00:00

  • Force-velocity relation for growing microtubules.

    abstract::Forces generated by microtubule polymerization and depolymerization are important for the biological functioning of cells. The mean growth velocity, V, under an opposing force, F, has been measured by; Science 278:856-860) for single microtubules growing in vitro, but their analysis of the data suggested that V decrea...

    journal_title:Biophysical journal

    pub_type: 杂志文章


    authors: Kolomeisky AB,Fisher ME

    更新日期:2001-01-01 00:00:00

  • Mean square fluctuations of hydrogen atoms and water-biopolymer interactions in hydrated saccharides.

    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

    pub_type: 杂志文章


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

    更新日期:2001-08-01 00:00:00

  • The Roles of Microtubules and Membrane Tension in Axonal Beading, Retraction, and Atrophy.

    abstract::Axonal beading, or the formation of a series of swellings along the axon, and retraction are commonly observed shape transformations that precede axonal atrophy in Alzheimer's disease, Parkinson's disease, and other neurodegenerative conditions. The mechanisms driving these morphological transformations are poorly und...

    journal_title:Biophysical journal

    pub_type: 杂志文章


    authors: Datar A,Ameeramja J,Bhat A,Srivastava R,Mishra A,Bernal R,Prost J,Callan-Jones A,Pullarkat PA

    更新日期:2019-09-03 00:00:00

  • Exchange of Gramicidin between Lipid Bilayers: Implications for the Mechanism of Channel Formation.

    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

    pub_type: 杂志文章


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

    更新日期:2017-10-17 00:00:00

  • Mechanotransduction-Induced Reversible Phenotypic Switching in Prostate Cancer Cells.

    abstract::Phenotypic plasticity is posed to be a vital trait of cancer cells such as circulating tumor cells, allowing them to undergo reversible or irreversible switching between phenotypic states important for tumorigenesis and metastasis. While irreversible phenotypic switching can be detected by studying the genome, reversi...

    journal_title:Biophysical journal

    pub_type: 杂志文章


    authors: Aw Yong KM,Sun Y,Merajver SD,Fu J

    更新日期:2017-03-28 00:00:00

  • Some Subtle Lessons from the Calyx of Held Synapse.

    abstract::The calyx of Held is a giant nerve terminal that forms a glutamatergic synapse in the auditory pathway. Due to its large size, it offers a number of advantages for biophysical studies, including voltage-clamp of both pre- and postsynaptic compartments and the loading with indicator dyes and caged compounds. Three aspe...

    journal_title:Biophysical journal

    pub_type: 杂志文章,评审


    authors: Neher E

    更新日期:2017-01-24 00:00:00

  • Mechanics and Buckling of Biopolymeric Shells and Cell Nuclei.

    abstract::We study a Brownian dynamics simulation model of a biopolymeric shell deformed by axial forces exerted at opposing poles. The model exhibits two distinct, linear force-extension regimes, with the response to small tensions governed by linear elasticity and the response to large tensions governed by an effective spring...

    journal_title:Biophysical journal

    pub_type: 杂志文章


    authors: Banigan EJ,Stephens AD,Marko JF

    更新日期:2017-10-17 00:00:00

  • Molecular models need to be tested: the case of a solar flares discoidal HDL model.

    abstract::In the absence of atomic structures of high-density lipoproteins in their lipid-bound states, many molecular models have been produced based on experimental data. Using molecular dynamics, we show that a recently proposed "solar-flares" model of discoidal high-density lipoprotein is implausible. Our simulations show a...

    journal_title:Biophysical journal

    pub_type: 信件


    authors: Shih AY,Sligar SG,Schulten K

    更新日期:2008-06-01 00:00:00

  • Cytoplasmic polyamines as permeant blockers and modulators of the voltage-gated sodium channel.

    abstract::We report that voltage-gated Na+ channels (Na(V)) from rat muscle (mu1) expressed in HEK293 cells exhibit anomalous rectification of whole-cell outward current under conditions of symmetrical Na+. This behavior gradually fades with time after membrane break-in, as if a diffusible blocking substance in the cytoplasm is...

    journal_title:Biophysical journal

    pub_type: 杂志文章


    authors: Huang CJ,Moczydlowski E

    更新日期:2001-03-01 00:00:00

  • Evaluating the performance of time-gated live-cell microscopy with lanthanide probes.

    abstract::Probes and biosensors that incorporate luminescent Tb(III) or Eu(III) complexes are promising for cellular imaging because time-gated microscopes can detect their long-lifetime (approximately milliseconds) emission without interference from short-lifetime (approximately nanoseconds) fluorescence background. Moreover, ...

    journal_title:Biophysical journal

    pub_type: 杂志文章


    authors: Rajendran M,Miller LW

    更新日期:2015-07-21 00:00:00

  • The role of membrane stiffness and actin turnover on the force exerted by DRG lamellipodia.

    abstract::We used optical tweezers to analyze the effect of jasplakinolide and cyclodextrin on the force exerted by lamellipodia from developing growth cones (GCs) of isolated dorsal root ganglia (DRG) neurons. We found that 25 nM of jasplakinolide, which is known to inhibit actin filament turnover, reduced both the maximal exe...

    journal_title:Biophysical journal

    pub_type: 杂志文章


    authors: Amin L,Ercolini E,Shahapure R,Migliorini E,Torre V

    更新日期:2012-06-06 00:00:00

  • Oligomerization and aggregation of bovine pancreatic ribonuclease A: characteristic events observed by FTIR spectroscopy.

    abstract::Nonnative protein aggregation, which is a common feature in biotechnology, is also a clinical feature in more than 20 serious degenerative diseases. We studied the specific events of bovine pancreatic ribonuclease A thermal aggregation by a combination of second derivative infrared analysis and two-dimensional infrare...

    journal_title:Biophysical journal

    pub_type: 杂志文章


    authors: Yan YB,Zhang J,He HW,Zhou HM

    更新日期:2006-04-01 00:00:00

  • Multifocal fluorescence microscope for fast optical recordings of neuronal action potentials.

    abstract::In recent years, optical sensors for tracking neural activity have been developed and offer great utility. However, developing microscopy techniques that have several kHz bandwidth necessary to reliably capture optically reported action potentials (APs) at multiple locations in parallel remains a significant challenge...

    journal_title:Biophysical journal

    pub_type: 杂志文章


    authors: Shtrahman M,Aharoni DB,Hardy NF,Buonomano DV,Arisaka K,Otis TS

    更新日期:2015-02-03 00:00:00

  • Photochemically induced charge separation occurring in bacteriorhodopsin. Detection by time-resolved dielectric loss.

    abstract::Time-resolved dielectric loss (TRDL) measurements are reported for the photochemical excitation of bacteriorhodopsin (bR) in solid films of Halobacterium halobium purple membranes. These measurements provide an independent confirmation for the existence of an important component of charge separation in these membranes...

    journal_title:Biophysical journal

    pub_type: 杂志文章


    authors: McIntosh AR,Boucher F

    更新日期:1991-07-01 00:00:00

  • Kinetic Analysis of Lipid Metabolism in Breast Cancer Cells via Nonlinear Optical Microscopy.

    abstract::Investigating the behavior of breast cancer cells via reaction kinetics may help unravel the mechanisms that underlie metabolic changes in tumors. However, obtaining human in vivo kinetic data is challenging because of difficulties associated with measuring these parameters. Nondestructive methods of measuring lipid c...

    journal_title:Biophysical journal

    pub_type: 杂志文章


    authors: Hou J,Reid NE,Tromberg BJ,Potma EO

    更新日期:2020-07-21 00:00:00

  • Probing tubulin-blocked state of VDAC by varying membrane surface charge.

    abstract::Reversible blockage of the voltage-dependent anion channel (VDAC) of the mitochondrial outer membrane by dimeric tubulin is being recognized as a potent regulator of mitochondrial respiration. The tubulin-blocked state of VDAC is impermeant for ATP but only partially closed for small ions. This residual conductance al...

    journal_title:Biophysical journal

    pub_type: 杂志文章


    authors: Gurnev PA,Queralt-Martin M,Aguilella VM,Rostovtseva TK,Bezrukov SM

    更新日期:2012-05-02 00:00:00

  • Mathematical analysis of cell-target encounter rates in three dimensions. Effect of chemotaxis.

    abstract::Efficient and rapid immune response upon challenge by an infectious agent is vital to host defense. The encounter of leukocytes (white blood cells of the immune system) with their targets is the first step in this response. Analysis of the kinetics of this process is essential not only to understanding dynamic behavio...

    journal_title:Biophysical journal

    pub_type: 杂志文章


    authors: Charnick SB,Lauffenburger DA

    更新日期:1990-05-01 00:00:00