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PubMed2005

An electrostatic steering mechanism of Cdc42 recognition by Wiskott-Aldrich syndrome proteins.

The specific and rapid formation of protein complexes is essential for diverse cellular processes such as remodeling of actin filaments in response to the interaction between Rho GTPases and the Wiskott-Aldrich syndrome proteins (WASp and N-WASp). Although Cdc42, TC10, and other members of the Rho family have been implicated in binding to and activating the WAS proteins, the exact nature of such a protein-protein recognition process has remained obscure. Here, we describe a mechanism that ensures rapid and selective long-range Cdc42-WASp recognition. The crystal structure of TC10, together with mutational and bioinformatic analyses, proved that the basic region of WASp and two unique glutamates in Cdc42 generate favorable electrostatic steering forces that control the accelerated WASp-Cdc42 association reaction. This process is a prerequisite for WASp activation and a critical step in temporal regulation and integration of WASp-mediated cellular responses.

Amino Acid Sequence↗
PubMed2005

Optical properties of Ag/CdTe nanocomposite self-organized by electrostatic interaction.

Ag/CdTe nanocomposite was prepared via self-organization process by electrostatic interaction between positively charged CdTe quantum dots and negatively charged Ag nanoparticles and examined with respect to their optical properties. The positively charged CdTe quantum dots and negatively charged Ag nanoparticles were synthesized separately by modifying nanoparticles surface with cationic and anionic thiol compounds, respectively. The result showed that the mixing ratio of Ag nanoparticles to CdTe quantum dots is an important parameter for controlling resulting composites. The resulting solution is optically transparent if one component is in excess. Photoluminescence of CdTe quantum dots undergoes considerably quenching if CdTe nanocrystals are in excess and SERS spectra of BVPP absorbed on Ag colloid became stronger if Ag nanoparticles are in excess. Nevertheless, while the ratio is approximately 1, micrometer-sized solid composite is obtained with the elapse of 1h after mixing. SERS spectra for solid composite only exhibit the signals of the CdS nanocrystal which reflected that prolonged refluxing during the synthesis leads to a partial hydrolysis of the thiols and to the incorporation of the sulfur from the thiol molecules into the the growing nanoparticles to form mixed CdTe(S) nanocrystal, similar to CdTe/CdS core/shell structure. From the results, we conclude that optical properties of Ag/CdTe are dependent on the mixing ratio of both nanoparticles.

Cadmium Compounds↗
PubMed2005

Mechanistic plasticity of DNA topoisomerase IB: phosphate electrostatics dictate the need for a catalytic arginine.

Four conserved amino acids of type IB topoisomerases (Arg130, Lys167, Arg223, and His265 in vaccinia topoisomerase) catalyze the attack by tyrosine on the scissile phosphodiester to form a DNA-(3'-phosphotyrosyl)-enzyme intermediate. The mechanism entails general acid catalysis (by Lys167 and Arg130) and transition-state stabilization (via contact of His265 with the pro-Sp oxygen). Here we query the function of Arg223, which accelerates transesterification by a factor of 10(5). The requirement for Arg223 is alleviated by a neutral Sp methylphosphonate (MeP) linkage at the cleavage site. Arg223 is not required for the 30,000-fold activation of the latent endonuclease activity of topoisomerase by the Sp MeP. The rate of autohydrolysis by the DNA-(3'-MeP)-topoisomerase intermediate approaches 10% of the rate of religation to a 5'-OH DNA strand. These findings underscore the importance of transition-state electrostatics in determining the composition of the active site and dictating the balance between strand transferase and hydrolase functions.

Arginine↗
PubMed2005

Retroviral matrix domains share electrostatic homology: models for membrane binding function throughout the viral life cycle.

The matrix domain (MA) of Gag polyproteins performs multiple functions throughout the retroviral life cycle. MA structures have an electropositive surface patch that is implicated in membrane association. Here, we use computational methods to demonstrate that electrostatic control of membrane binding is a central characteristic of all retroviruses. We are able to explain a wide range of experimental observations and provide a level of quantitative and molecular detail that has been inaccessible to experiment. We further predict that MA may exist in a variety of oligomerization states and propose mechanistic models for the effects of phosphoinositides and phosphorylation. The calculations provide a conceptual model for how non-myristoylated and myristoylated MAs behave similarly in assembly and disassembly. Hence, they provide a unified quantitative picture of the structural and energetic origins of the entire range of MA function and thus enhance, extend, and integrate previous observations on individual stages of the process.

Cell Membrane↗
PubMed2005

Differential algebraic method for aberration analysis of typical electrostatic lenses.

In this paper up to fifth-order geometric and third-order chromatic aberration coefficients of typical electrostatic lenses are calculated by means of the charged particle optics code, COSY INFINITY, based on the differential algebraic (DA) method. A two-tube immersion lens and a symmetric einzel lens have been chosen as two examples, whose axial potential distributions are numerically calculated by a FORTRAN program using the finite difference method. The DA results are in good agreement with those evaluated by the aberration integrals in electron optics. The DA method presented here can easily be extended to aberration analysis of other numerically computed electron lenses, including magnetic lenses.

Journal Article↗
PubMed2006

A femtogram resolution mass sensor platform based on SOI electrostatically driven resonant cantilever. Part II: sensor calibration and glycerine evaporation rate measurement.

This paper presents mass measurements of glycerine beads performed by means of laterally resonant micro-cantilevers. The transducer architecture is based on a resonant cantilever electrostatically coupled by two parallel placed electrodes. Previous to glycerine measurements, a calibration of the mass sensor has been performed by measuring a standard mass based on latex spheres. From these measurements, a value of the mass responsivity is deduced. In addition, a study of the transducer phase noise has been carried out in order to determine the minimum detectable mass. Mass measurements experiments have been performed by detecting the change on the resonance frequency of the on-plane cantilever resonant mode, produced by locally deposited mass. Additionally, the mass losses detected on the calibrated transducer after glycerine drop deposition allowed determining its evaporation rate.

Journal Article↗
PubMed2006

Atomic force microscope tip spontaneous retraction from dielectric surfaces under applied electrostatic potential.

A time-resolved method for tip' retraction at micros-scale away from dielectric surfaces has been developed. Analysis of the forces in the system comprising AFM tip, water meniscus, and polymer film suggests that an electrostatic repulsion of the tip from the surface in the double-layered (water and polymer) system, and water condensation in the tip-surface junction are the dominant factors enabling the mechanical work for tip retraction. Nanostructures of 5-80 nm height are formed in polymeric surfaces as a result. This interesting physical phenomenon could be used for nanostructures patterning in polymeric materials at enhanced aspect ratio.

Journal Article↗
PubMed2005

Utilization of magnetic and electrostatic separation in the recycling of printed circuit boards scrap.

The progress of the technology is directly related to the growth of production and consumption of electrical/electronics equipment, especially of personal computers. This type of equipment has a relatively short average lifetime, 2-3 years. The amount of defective or obsolete equipment has been increasing substantially; consequently its disposition and/or recycling should be studied. In this work, printed circuit boards, which are used in personal computers, were studied in order to recover the metals in the circuit boards through mechanical processing, such as crushing, screening, as well as magnetic and electrostatic separation. The results obtained demonstrate the feasibility of using these processes to separate metal fractions from polymers and ceramics, and that it is possible to obtain a fraction concentrated in metals containing more than 50% on average of copper, 24% of tin and 8% of lead.

Ceramics↗
PubMed2003

Long-range electrostatic forces on the surfaces of aluminum oxide and silica oxide.

The morphology and electrical microstructure of different anodic oxide films on aluminum and thermic oxide on surface p-type silica (KDB/100) were studied using atomic force microscopy and scanning capacitance microscopy. It was shown that the small basic element in the texture of both thin (0.05 microm) and thick (0.8 microm) oxide films represents a disklike element ('grain') approximately 200x200x30 nm in size. For films with a rough surface relief, the capacitance (and consequently, the surface potential) shows strong fluctuations in the vicinity of coarse (approximately 5-8 microm) pores. Because of this, the image of the surface obtained using atomic force microscopy does not coincide with that obtained by scanning capacitance microscopy (the opposite contrast effect). The manifestation of the opposite contrast correlates with an increase in the surface potential of the anodic oxide films measured by an independent method. A series of experiments under atmospheric conditions at different distances from the end of the cantilever to the surface of anodic oxide films showed that the influence of the surface field is detectable at long distances (up to 0.7 microm). It was shown that at a test temperature of 120 degrees C, the opposite contrast disappears: the images obtained in the semicontact (atomic force microscopy) and non-contact (scanning capacitance microscopy) modes coincide with each other. The results obtained suggest a relationship between the formation of electrostatic nanosized irregularities at the surface of oxide films and the sorption of water molecules under atmospheric conditions.

Aluminum Oxide↗
PubMed2002

Surface plasmon resonance measurement of pH-induced responses of immobilized biomolecules: conformational change or electrostatic interaction effects?

Recently, the observation of pH-induced conformational changes of biomolecules supported on carboxymethyldextran (CMD)-coated surfaces measured using surface plasmon resonance (SPR) has been reported. However, it is apparent that the evidence reported in the literature is ambiguous. The research presented in this paper describes investigations to study the changing SPR signal of immobilized biomolecules as a function of varying pH, to provide a detailed understanding of the origin of the pH-induced changes in the SPR profile. SPR measurements were performed with cytochrome c, concanavalin A, and poly-L-lysine, biomolecules that exhibit diverse conformational responses to changing pH, covalently immobilized onto CMD-coated supports. These SPR measurements were supported by circular dichroism (CD) solution studies. The SPR profiles recorded were not consistent with the conformational transitions of the biomolecules as observed using CD. An alternative explanation for the observed shifts in SPR is proposed, which explains the SPR profiles in terms of electrostatic interaction effects between the immobilized biomolecules and the carboxymethyldextran matrix.

Animals↗
PubMed2003

Studies on quantum dots synthesized in aqueous solution for biological labeling via electrostatic interaction.

3-Mercaptopropyl acid-stabilized CdTe nanoparticles synthesized in aqueous solution are effectively bound to a biomacromolecule, papain, via electrostatic interaction. The conjugation between the nanoparticles and the papain is demonstrated by UV-Vis absorption, photoluminescence spectroscopy, transmission electron microscopy, and fluorescence micrographs. The biological activity of papain is maintained after the conjugation. The effects of the quantity of papain and the size of nanoparticles on the fluorescence characteristics of the CdTe-papain bioconjugates were studied.

Biotechnology↗
PubMed2000

NMR probes of vectoriality in the proton-motive photocycle of bacteriorhodopsin: evidence for an 'electrostatic steering' mechanism.

In recent years, significant progress has been made in elucidating the structure of bacteriorhodopsin. However, the molecular mechanism by which vectorial proton motion is enforced remains unknown. Given the advantages of a protonated Schiff base for both photoisomerization and thermal reisomerization of the chromophore, a five-state proton pump can be rationalized in which the switch in the connectivity of the Schiff base between the two sides of the membrane is decoupled from double bond isomerization. This decoupling requires tight control of the Schiff base until it is deprotonated and decisive release after it is deprotonated. NMR evidence has been obtained for both the tight control and the decisive release: strain develops in the chromophore in the first half of the photocycle and disappears after deprotonation. The strain is associated with a strong interaction between the Schiff base and its counterion, an interaction that is broken when the Schiff base deprotonates. Thus the counterion appears to play a critical role in energy transduction, controlling the Schiff base in the first half of the photocycle by 'electrostatic steering'. NMR also detects other events during the photocycle, but it is argued that these are secondary to the central mechanism.

Bacteriorhodopsins↗
PubMed2000

Interaction of oligonucleotides with cationic lipids: the relationship between electrostatics, hydration and state of aggregation.

Lipoplexes, which are spontaneously formed complexes between oligonucleotide (ODN) and cationic lipid, can be used to deliver ODNs into cells, both in vitro and in vivo. The present study was aimed at characterizing the interactions associated with the formation of lipoplexes, specifically in terms of electrostatics, hydration and particle size. Large unilamellar vesicles (approximately 100 nm diameter), composed of either DOTAP, DOTAP/cholesterol (mole ratio 1:1) or DOTAP/DOPE (mole ratio 1:1) were employed as a model of cationic liposomes. Neutral vesicles ( approximately 100 nm diameter), composed of DOPC/DOPE (mole ratio 1:1), were employed as control liposomes. After ODN addition to vesicles, at different mole ratios, changes in pH and electrical surface potential at the lipid-water interface were analyzed by using the fluorophore heptadecyl-7-hydroxycoumarin. In separate 'mirror image' experiments, liposomes were added at different mole ratios to fluorescein isothiocyanate-labeled ODNs, thus yielding data about changes in the pH near the ODN molecules induced by the complexation with the cationic lipid. Particle size distribution and turbidity fluctuations were analyzed by the use of photon correlation spectroscopy and static light-scattering, respectively. In additional fluorescent probe studies, TMADPH was used to quantify membrane defects while laurdan was used to measure the level of hydration at the water-lipid interface. The results indicate that mutual neutralization of cationic lipids by ODNs and vice versa is a spontaneous reaction and that this neutralization is the main driving force for lipoplex generation. When lipid neutralization is partial, induced membrane defects cause the lipoplexes to exhibit increased size instability.

2-Naphthylamine↗
PubMed1998

Interaction of DPPC monolayers with soluble surfactants: electrostatic effects of membrane perturbants.

We studied the effects of four soluble surfactants on DPPC monolayers to elucidate the action of these membrane perturbants. The presence of nonionic N-9 and amphoteric C31G strongly affected the pure DPPC isotherm, while anionic SDS and cationic DTAB had little effect. The impact of surfactant on DPPC domain shape in the liquid condensed-liquid expanded coexistence region showed the opposite result. Neutral surfactants had minimal effect on the shape of DPPC domains; charged surfactants, on the other hand, induced a new shape transition at high surface pressures previously unreported for DPPC domains. All of these results are discussed with particular attention given to electrostatic effects at the interface.

1,2-Dipalmitoylphosphatidylcholine↗
PubMed2003

Cytochrome c decelerates channel kinetics of negatively charged gramicidin due to electrostatic interaction.

The effect of cytochrome c on the kinetic properties of ion channels formed by O-pyromellitylgramicidin (OPg), the negatively charged analogue of gramicidin A (gA), in bilayer lipid membranes was studied by the method of sensitized photoinactivation. The addition of cytochrome c to both sides of the membrane caused substantial deceleration of the photoinactivation kinetics of OPg channels which expose three negative charges to the aqueous phase at both sides of the membrane. By contrast, the gA photoinactivation kinetics was unaltered by the addition of cytochrome c. Based on the sensitivity of the observed effect to the ionic strength of the bathing solution, the cytochrome c-induced deceleration of the OPg photoinactivation kinetics reflecting the increase in the OPg channel lifetime was ascribed to electrostatic interaction of positive charges of cytochrome c with negative charges of OPg that resulted in channel clustering. Formation of clusters of OPg channels was previously inferred to explain the polylysine effect on the OPg channel kinetics. The decelerating effect of cytochrome c on OPg channels was observed only at a high number of OPg channels in the membrane, thus suggesting that the interaction between cytochrome c and the charged transmembrane protein requires sufficiently high negative charge density on the surface of the membrane.

Animals↗
PubMed1988

Calculation of the magnitude and orientation of electrostatic interactions between small aromatic rings in peptides and proteins: implications for angiotensin II.

Electrostatic interactions between aromatic rings are believed to contribute to the intramolecular structuring and biological function of peptides and proteins. The modes of interaction of benzene with 1) benzene (Phe:Phe), 2) imidazole (Phe:His), and 3) imidazole anion (Phe:His), were calculated using all-electron ab initio wavefunctions. In all cases parallel-plate stackings were found to be purely repulsive, whereas perpendicular-plate geometries were attractive with interaction energies of -0.82 (Phe:Phe), -1.19 (Phe:His) and -3.39 (Phe:His) kcal/mole. These data show that small ring interactions in peptides and proteins will prefer perpendicular-plate geometry. For the proposed His:Phe interaction in angiotensin II, the attraction will be three times greater when the imidazole ring carries a negative charge.

Angiotensin II↗
PubMed2000

An electrostatic mechanism closely reproducing observed behavior in the bacterial flagellar motor.

A mechanism coupling the transmembrane flow of protons to the rotation of the bacterial flagellum is studied. The coupling is accomplished by means of an array of tilted rows of positive and negative charges around the circumference of the rotor, which interacts with a linear array of proton binding sites in channels. We present a rigorous treatment of the electrostatic interactions using minimal assumptions. Interactions with the transition states are included, as well as proton-proton interactions in and between channels. In assigning values to the parameters of the model, experimentally determined structural characteristics of the motor have been used. According to the model, switching and pausing occur as a consequence of modest conformational changes in the rotor. In contrast to similar approaches developed earlier, this model closely reproduces a large number of experimental findings from different laboratories, including the nonlinear behavior of the torque-frequency relation in Escherichia coli, the stoichiometry of the system in Streptococcus, and the pH-dependence of swimming speed in Bacillus subtilis.

Bacillus subtilis↗
PubMed2000

Electrostatic interaction between charybdotoxin and a tetrameric mutant of Shaker K(+) channels.

The scorpion toxin, Charybdotoxin (CTX), blocks homotetrameric, voltage-gated K(+) channels by binding near the outer entrance to the pore in one of four indistinguishable orientations. We have determined the pH-dependence of CTX block of a tetrameric Shaker potassium channel with a single copy of a histidine replacing the wild-type phenylalanine at position 425. We compared this pH-dependence with that from homotetrameric channels with four copies of the mutation. We found that protonation of a single amino acid at position 425 had a large effect on the affinity of the channel for CTX-much larger than expected if only one of the four CTX binding orientations was disrupted. The pK(a) for the H(+)-ion induced protection from CTX block indicates that the electrostatic environment near position 425 is likely basic in nature, perhaps because of the proximity of lysine 427. We also examined the pH-dependence of block of channels with one and four copies of the histidine mutation by CTX containing neutralizing mutations of four basic residues on the active face of the toxin. The results suggested an orientation of CTX on the channel that places three of the positively charged CTX residues very near three of the four Shaker 425 positions.

Animals↗