How a protein searches for its specific site on DNA: the role of intersegment transfer

Proteins are known to locate their specific targets on DNA up to two orders of magnitude faster than predicted by the Smoluchowski three-dimensional diffusion rate. One of the mechanisms proposed to resolve this discrepancy is termed "intersegment transfer". Many proteins have two DNA binding sites and can transfer from one DNA segment to another without dissociation to water. We calculate the target search rate for such proteins in a dense globular DNA, taking into account intersegment transfer working in conjunction with DNA motion and protein sliding along DNA. We show that intersegment transfer plays a very important role in cases where the protein spends most of its time adsorbed on DNA.Comment: 9 pages, 7 figure

Fluctuations of the vacuum energy density of quantum fields in curved spacetime via generalized zeta functions

For quantum fields on a curved spacetime with an Euclidean section, we derive a general expression for the stress energy tensor two-point function in terms of the effective action. The renormalized two-point function is given in terms of the second variation of the Mellin transform of the trace of the heat kernel for the quantum fields. For systems for which a spectral decomposition of the wave opearator is possible, we give an exact expression for this two-point function. Explicit examples of the variance to the mean ratio $\Delta' = (-^2)/(^2)$ of the vacuum energy density $\rho$ of a massless scalar field are computed for the spatial topologies of $R^d\times S^1$ and $S^3$, with results of $\Delta'(R^d\times S^1) =(d+1)(d+2)/2$, and $\Delta'(S^3) = 111$ respectively. The large variance signifies the importance of quantum fluctuations and has important implications for the validity of semiclassical gravity theories at sub-Planckian scales. The method presented here can facilitate the calculation of stress-energy fluctuations for quantum fields useful for the analysis of fluctuation effects and critical phenomena in problems ranging from atom optics and mesoscopic physics to early universe and black hole physics.Comment: Uses revte

Generating entanglement with low Q-factor microcavities

We propose a method of generating entanglement using single photons and electron spins in the regime of resonance scattering. The technique involves matching the spontaneous emission rate of the spin dipole transition in bulk dielectric to the modified rate of spontaneous emission of the dipole coupled to the fundamental mode of an optical microcavity. We call this regime resonance scattering where interference between the input photons and those scattered by the resonantly coupled dipole transition result in a reflectivity of zero. The contrast between this and the unit reflectivity when the cavity is empty allow us to perform a non demolition measurement of the spin and to non deterministically generate entanglement between photons and spins. The chief advantage of working in the regime of resonance scattering is that the required cavity quality factors are orders of magnitude lower than is required for strong coupling, or Purcell enhancement. This makes engineering a suitable cavity much easier particularly in materials such as diamond where etching high quality factor cavities remains a significant challenge

Microspectroscopy and Imaging in the THz Range Using Coherent CW Radiation

A novel THz near-field spectrometer is presented which allows to perform biological and medical studies with high spectral resolution combined with a spatial resolution down to l/100. In the setup an aperture much smaller than the used wavelength is placed in the beam very close to the sample. The sample is probed by the evanescent wave behind the aperture. The distance is measured extremely accurate by a confocal microscope. We use monochromatic sources which provide powerful coherent cw radiation tuneable from 50 GHz up to 1.5 THz. Transmission and reflection experiments can be performed which enable us to study solids and molecules in aqueous solution. Examples for spectroscopic investigations on biological tissues are presented.Comment: 4 pages, 5 figures, email: [email protected]