Excitation wavelength dependence of the proton-transfer reaction of the green fluorescent protein

Picosecond time-correlated single-photon counting was used to measure the proton-transfer rate of green fluorescent protein (GFP) excited by several wavelengths between 266 and 405 nm. When samples of GFP in water and D2O are excited at short wavelengths, lambda(ex) < 295 nm, the fluorescence properties are largely modified with respect to excitation at a wavelength around 400 nm, the peak of the absorption band of the S0 --> S1 transition of the ROH form of the chromophore. The shorter the excitation wavelength, the longer the decay time of the ROH emission band at 450 nm and the longer the rise time of the RO- emission band at 512 nm. The proton transfer is slower by an order of magnitude and about a factor of 3 when GFP in water and D2O are excited by 266 nm, respectively.     

Single polymer chains as specific transducers of molecular recognition in scanning probe microscopy

A new approach for the specific detection and mapping of single molecule recognition is presented, based on the nonlinear elastic behavior of a single polymer chain. The process of molecular recognition between a ligand and a receptor is inherently accompanied by a decrease in the translational and rotational degrees of freedom of the two molecules. We show that a polymeric tether linked to the ligand can effectively transduce the configurational constraint imposed by molecular recognition into a measurable force, which is dominated by the entropic elasticity of the polymer. This force is specifically characterized by a strong nonlinearity when the extension of the polymer approaches its contour length. Thus, a polymer chain tethering the ligand to an oscillating cantilevered tip gives rise to a highly anharmonic motion upon ligand-receptor binding. Higher-harmonics atomic force microscopy allows us to detect this phenomenon in real time as a specific signature for the probing and mapping of single-molecule recognition.     

Vibrational structure and methyl C-H dynamics in propyne

Our previous study [J. Chem. Phys. 122, 224316 (2005)] presented the photoacoustic and action spectra of the V=2, 3, 4, and 5 manifolds of the C-H methyl stretching vibrations of propyne and their analysis in terms of a simplified joint local mode/normal mode model. In the current paper the C-H transition intensities were calculated using B3LYP6-311++G(d,p) level of theory to obtain the dipole moment functions. The diagonalization of the vibrational Hamiltonian revealed new model parameters obtained by least square fitting of the eigenvalues to the action spectra band origins, while examining the correspondence between the calculated intensities and simulated band areas. The newly derived parameters predict well the band positions and the observed intensities, allowing new assignment of the features. The derived Hamiltonian was also used to obtain the overall temporal behavior of the C-H stretches as a result of the Fermi couplings and interactions with the bath states. These results indicate that any specificity attained by suitable excitation of the methyl C-H stretches is lost on picosecond time scale, primarily due to strong interactions with doorway states in the lower overtone and coupling with bath states in the region of the higher ones.     

Radiation damage to alkyl chain monolayers on semiconductor substrates investigated by electron spectroscopy

Monolayers of alkyl chains, attached through direct Si-C bonds to Si(111), via phosphonates to GaAs(100) surfaces, or deposited as alkyl-silane monolayers on SiO2, are investigated by ultraviolet and inverse photoemission spectroscopy and X-ray absorption spectroscopy. Exposure to ultraviolet radiation from a He discharge lamp, or to a beam of energetic electrons, leads to significant damage, presumably associated with radiation- or electron-induced H-abstraction leading to carbon-carbon double-bond formation in the alkyl monolayer. The damage results in an overall distortion of the valence spectrum, in the appearance of (occupied) states above the highest occupied molecular orbital of the alkyl molecule, and in a characteristic (unoccupied state) pi resonance at the edge of the carbon absorption peak. These distortions present a serious challenge for the interpretation of the electronic structure of the monolayer system. We show that extrapolation to zero damage at short exposure times eliminates extrinsic features and allows a meaningful extraction of the density of state of the pristine monolayer from spectroscopy measurements.     

Comment on the Roberts Solution for the Spherically-Symmetric Einstein-Scalar Field Equations

We critically examine the Roberts homothetic solution for the spherically symmetric Einstein-scalar field equations in double null coordinates, and show that the Roberts solution indeed solves the field equations only for one non-trivial case. We generalize this solution and discuss its relations with other known exact solutions.     

The small-molecule iron transport inhibitor ferristatin/NSC306711 promotes degradation of the transferrin receptor

Iron delivery by transferrin (Tf) is accomplished through clathrin-mediated endocytosis of Tf receptors. The small molecule NSC306711 inhibits iron uptake from the Tf-TfR pathway. Here we show that the drug's mechanism of action is to induce internalization and degradation of unoccupied Tf receptors through an unexpected endocytic pathway. Unlike classical clathrin-mediated Tf receptor endocytosis, internalization promoted by NSC306711 is independent of clathrin and dynamin, and is sensitive to the cholesterol-depleting agents filipin and nystatin. The finding of this cholesterol-dependent Tf receptor internalization pathway through use of the small-molecule inhibitor sheds light on the pleiotropic nature of membrane trafficking dynamics and adds a complex dimension to our understanding of receptor regulation. Because of its unusual properties to inhibit iron uptake, we refer to NSC306711 as "ferristatin."     

What can electrochemistry tell us about individual enzymes?

We provide here a critical analysis of electrochemistry's potential and limitations in investigating single-enzyme catalysis, highlighting papers of interest from the past 2–3 years with an emphasis on nano-impact electrochemistry (NIE) and electrochemical scanning tunneling microscopy. NIE can report single-enzyme activity; however, its future broad applicability for studying freely diffusing individual enzymes is questionable. Electrochemical scanning tunneling microscopy, an alternative to NIE, measures single enzyme's electronic conductivity when suspended between two electrodes. Recent discoveries indicate that enzyme conductance depends directly on biophysical parameters such as substrate binding, oxidation state of the catalytic center, and structural fluctuations. We conclude with a short perspective on additional electrochemical routes and combinations of existing techniques that may be useful for studying single-enzyme characteristics.     

Velocities, Stresses and Vector Bundle Valued Chains

A mathematical framework for the fundamental objects of continuum mechanics is presented. In the geometric setting of general differentiable manifolds, velocity fields over bodies, modeled as sections of a vector bundle W, are generalized using notions of homological integration theory such as flat chains and cochains. The class of bodies includes fractal sets whose irregular boundaries may have infinite measures. Stresses, initially modeled as smooth differential forms valued in the dual of the jet bundle of W, are generalized to cochains represented by L ^??-sections whose weak divergences are also L ^??. The divergence of a stress field, defined in an earlier work, is generalized to apply to stress cochains. The co-divergence of a velocity field is a weak form of the jet extension mapping and it is the counterpart of the boundary operator for real valued flat chains.