Search results for "Quantitative Biology::Subcellular Processes"
showing 10 items of 97 documents
Protein-membrane interaction probed by single plasmonic nanoparticles.
2008
We present a nanosized and addressable sensor platform based on membrane coated plasmonic particles and show unequivocally the covering with lipid bilayers as well as the subsequent detection of streptavidin binding to biotinylated lipids. The binding is detected on membrane covered gold nanorods by monitoring the spectral shift by fast single particle spectroscopy (fastSPS) on many particles in parallel. Our approach allows for local analysis of protein interaction with biological membranes as a function of the lateral composition of phase separated membranes.
Filament sets and homogeneous continua
2007
Abstract New tools are introduced for the study of homogeneous continua. The subcontinua of a given continuum are classified into three types: filament , non-filament , and ample , with ample being a subcategory of non-filament. The richness of the collection of ample subcontinua of a homogeneous continuum reflects where the space lies in the gradation from being locally connected at one extreme to indecomposable at another. Applications are given to the general theory of homogeneous continua and their hyperspaces.
Hydrodynamics with spin in bacterial suspensions
2016
We describe a new kind of self-propelling motion of bacteria based on the cooperative action of rotating flagella on the surface of bacteria. Describing the ensemble of rotating flagella in the framework of the hydrodynamics with spin the reciprocal theorem of Stokesian hydrodynamics is generalized accordingly. The velocity of the self-propulsion is expressed in terms of the characteristics of the vector field of flagella orientation and it is shown that unusually high velocities of \textit{Thiovulum majus} bacteria may be explained by the cooperative action of the rotating flagella. The expressions obtained enable us to estimate the torque created by the rotary motors of the bacterium and …
Anomalous surface diffusion of protons on lipid membranes.
2014
AbstractThe cellular energy machinery depends on the presence and properties of protons at or in the vicinity of lipid membranes. To asses the energetics and mobility of a proton near a membrane, we simulated an excess proton near a solvated DMPC bilayer at 323 K, using a recently developed method to include the Grotthuss proton shuttling mechanism in classical molecular dynamics simulations. We obtained a proton surface affinity of −13.0 ± 0.5 kJ mol−1. The proton interacted strongly with both lipid headgroup and linker carbonyl oxygens. Furthermore, the surface diffusion of the proton was anomalous, with a subdiffusive regime over the first few nanoseconds, followed by a superdiffusive re…
Robust three-dimensional best-path phase-unwrapping algorithm that avoids singularity loops.
2009
In this paper we propose a novel hybrid three-dimensional phase-unwrapping algorithm, which we refer to here as the three-dimensional best-path avoiding singularity loops (3DBPASL) algorithm. This algorithm combines the advantages and avoids the drawbacks of two well-known 3D phase-unwrapping algorithms, namely, the 3D phase-unwrapping noise-immune technique and the 3D phase-unwrapping best-path technique. The hybrid technique presented here is more robust than its predecessors since it not only follows a discrete unwrapping path depending on a 3D quality map, but it also avoids any singularity loops that may occur in the unwrapping path. Simulation and experimental results have shown that …
Control Strategy for Induction Motor Drives Based on Decoupling Techniques
1989
Abstract In this work a new closed loop, synchronous microprocessor-based controller is proposed for field oriented controlled induction motor drives, using a PWM voltage source inverter. This controller is based on a non linear state feedback compensator which gives decoupling of both rotor current and rotor flux, and direct and inquadrature components of the stator current vector. The compensator has a linearizing effect on the synchronous model of the electromagnetic circuit of the motor. It follows that the control laws can be obtained using optimal control techniques for linear systems. The controller in question gives directly the conduction sequences of the inverter supplying the ind…
Translocation time of periodically forced polymer chains.
2010
6 páginas, 11 figuras.-- PACS number(s): 36.20.-r, 05.40.-a, 87.15.A-, 87.10.-e
Studying the role of protein dynamics in an SN2 enzyme reaction using free-energy surfaces and solvent coordinates
2013
Conformational changes are known to be able to drive an enzyme through its catalytic cycle, allowing, for example, substrate binding or product release. However, the influence of protein motions on the chemical step is a controversial issue. One proposal is that the simple equilibrium fluctuations incorporated into transition-state theory are insufficient to account for the catalytic effect of enzymes and that protein motions should be treated dynamically. Here, we propose the use of free-energy surfaces, obtained as a function of both a chemical coordinate and an environmental coordinate, as an efficient way to elucidate the role of protein structure and motions during the reaction. We sho…
Calculation of the Phase Behavior of Lipids
1998
The self-assembly of monoacyl lipids in solution is studied employing a model in which the lipid's hydrocarbon tail is described within the Rotational Isomeric State framework and is attached to a simple hydrophilic head. Mean-field theory is employed, and the necessary partition function of a single lipid is obtained via a partial enumeration over a large sample of molecular conformations. The influence of the lipid architecture on the transition between the lamellar and inverted-hexagonal phases is calculated, and qualitative agreement with experiment is found.
Polymer-induced shape changes and capping in giant liposomes
1995
We studied the coupling of a polymeric amphiphile undergoing a transition from an expanded to a collapsed state of the hydrophilic polymer chain upon heating above 29°C with free and solid supported lipid bilayers. Lateral diffusion measurements and studies of vesicle shape-changes confirmed previous calorimetric studies, suggesting that the amphiphile remains incorporated in the giant vesicles and the supported bilayer during the transition. The two-dimensional hydrodynamic radii of the amphiphile in the expanded and collapsed state was measured by making use of the strong quadratic dependence of the diffusion coefficient on the radius of the diffusant (D ∞ r−2) due to the frictional coupl…