Helicase activity on DNA as a propagating front

We develop a propagating front analysis, in terms of a local probability of zipping, for the helicase activity of opening up a double stranded DNA (dsDNA). In a fixed-distance ensemble (conjugate to the fixed-force ensemble) the front separates the zipped and unzipped phases of a dsDNA and a drive acts locally around the front. Bounds from variational analysis and numerical estimates for the speed of a helicase are obtained. Different types of helicase behaviours can be distinguished by the nature of the drive.Comment: 5 pages, 5 eps figures; replaced by the published versio

Reunion of random walkers with a long range interaction: applications to polymers and quantum mechanics

We use renormalization group to calculate the reunion and survival exponents of a set of random walkers interacting with a long range $1/r^2$ and a short range interaction. These exponents are used to study the binding-unbinding transition of polymers and the behavior of several quantum problems.Comment: Revtex 3.1, 9 pages (two-column format), 3 figures. Published version (PRE 63, 051103 (2001)). Reference corrections incorporated (PRE 64, 059902 (2001) (E

Nonequilibrium tricriticality in one dimension

We show the existence of a nonequilibrium tricritical point induced by a repulsive interaction in one dimensional asymmetric exclusion process. The tricritical point is associated with the particle-hole symmetry breaking introduced by the repulsion. The phase diagram and the crossover in the neighbourhood of the tricritical point for the shock formation at one of the boundaries are determined.Comment: 6 pages; 4 figure

Reduced magnetohydrodynamic theory of oblique plasmoid instabilities

The three-dimensional nature of plasmoid instabilities is studied using the reduced magnetohydrodynamic equations. For a Harris equilibrium with guide field, represented by \vc{B}_o = B_{po} \tanh (x/\lambda) \hat{y} + B_{zo} \hat{z}, a spectrum of modes are unstable at multiple resonant surfaces in the current sheet, rather than just the null surface of the polodial field $B_{yo} (x) = B_{po} \tanh (x/\lambda)$, which is the only resonant surface in 2D or in the absence of a guide field. Here $B_{po}$ is the asymptotic value of the equilibrium poloidal field, $B_{zo}$ is the constant equilibrium guide field, and $\lambda$ is the current sheet width. Plasmoids on each resonant surface have a unique angle of obliquity $\theta \equiv \arctan(k_z/k_y)$. The resonant surface location for angle $\theta$ is x_s = - \lambda \arctanh (\tan \theta B_{zo}/B_{po}), and the existence of a resonant surface requires $|\theta| < \arctan (B_{po} / B_{zo})$. The most unstable angle is oblique, i.e. $\theta \neq 0$ and $x_s \neq 0$, in the constant-$\psi$ regime, but parallel, i.e. $\theta = 0$ and $x_s = 0$, in the nonconstant-$\psi$ regime. For a fixed angle of obliquity, the most unstable wavenumber lies at the intersection of the constant-$\psi$ and nonconstant-$\psi$ regimes. The growth rate of this mode is $\gamma_{\textrm{max}}/\Gamma_o \simeq S_L^{1/4} (1-\mu^4)^{1/2}$, in which $\Gamma_o = V_A/L$, $V_A$ is the Alfv\'{e}n speed, $L$ is the current sheet length, and $S_L$ is the Lundquist number. The number of plasmoids scales as $N \sim S_L^{3/8} (1-\mu^2)^{-1/4} (1 + \mu^2)^{3/4}$.Comment: 9 pages, 8 figures, to be published in Physics of Plasma

Scaling of fluctuation for Directed polymers with random interaction

Using a finite size scaling form for reunion probability, we show numerically the existence of a binding-unbinding transition for Directed polymers with random interaction. The cases studied are (A1) two chains in 1+1 dimensions, (A2) two chains in 2+1 dimensions and (B) three chains in 1+1 dimensions. A similar finite size scaling form for fluctuation establishes a disorder induced transition with identical exponents for cases A2 and B. The length scale exponents in all the three cases are in agreement with previous exact renormalization group results.Comment: Revtex, 4 postscript figures available on request (email: [email protected]); To appear in J. Phys. A Letter

Theory of tricriticality for miscut surfaces

We propose a theory for the observed tricriticality in the orientational phase diagram of Si(113) misoriented towards [001]. The systems seems to be at or close to a very special point for long range interactions.Comment: Revtex, 1 ps figur