arXiv subjects

Arnab Mukherjee

Publications and source records attributed to Arnab Mukherjee.

25 records · Page 2Linked to original sources

arXiv2019

Photon velocity, power spectrum in Unruh effect with modified dispersion relation

In this paper we propose a new form of generalized uncertainty principle which involves both a linear as well as a quadratic term in the momentum. From this we have obtained the corresponding modified dispersion relation which is compared with the corresponding relation in rainbow gravity. The new form of the generalized uncertainty principle reduces to the known forms in appropriate limits. We then calculate the modified velocity of photons and we find that it is energy dependent, allowing therefore for a superluminal propagation. We then derive the $1+1$-dimensional Klein-Gordon equation taking into account the effects of the modified dispersion relation. The positive frequency mode solution of this equation is then used to calculate the power spectrum arising due to the Unruh effect. The result shows that the power spectrum depends on the energy of the particle owing its origin to the presence of the generalized uncertainty principle. Our results capture the effects of both the simplest form as well as the linear form of the generalized uncertainty principle and also points out an error in the result of the power spectrum up to first order in the generalized uncertainty principle parameter existing in the literature.

physics.gen-ph↗

arXiv2017

Particles with selective wetting affect spinodal decomposition microstructures

We have used mesoscale simulations to study the effect of immobile particles on microstructure formation during spinodal decomposition in ternary mixtures such as polymer blends. Specifically, we have explored a regime of interparticle spacings (which are a few times the characteristic spinodal length scale) in which we might expect interesting new effects arising from interactions among wetting, spinodal decomposition and coarsening. In this paper, we report three new effects for systems in which the particle phase has a strong preference for being wetted by one of the components (say, A). In the presence of particles, microstructures are not bicontinuous in a symmetric mixture. An asymmetric mixture, on the other hand, first forms a non-bicontinuous microstructure which then evolves into a bicontinuous one at intermediate times. Moreover, while wetting of the particle phase by the preferred component (A) creates alternating A-rich and B-rich layers around the particles, curvature-driven coarsening leads to shrinking and disappearance of the first A-rich layer, leaving a layer of the non-preferred component in contact with the particle. At late simulation times, domains of the matrix components coarsen following the Lifshitz-Slyozov-Wagner law, $R_1(t) \sim t^{1/3}$.

cond-mat.mtrl-sci↗

arXiv2016

Influence of substrate interaction and confinement on electric field induced transition in symmetric block copolymer thin films

In the present work, we study morphologies arising due to competing substrate interaction, electric field and confinement effects on a symmetric diblock copolymer. We employ a coarse grained non-local Cahn-Hilliard phenomenological model taking into account the appropriate contributions of substrate interaction and electrostatic field. The proposed model couples the Ohta-Kawasaki functional with Maxwell equation of electrostatics, thus alleviating the need for any approximate solution used in previous studies. We calculate the phase diagram in electric field-substrate strength space for different film thicknesses. In addition to identifying the presence of parallel, perpendicular and mixed lamellae phases similar to analytical calculations, we also find a region in the phase diagram where hybrid morphologies (combination of two phases) coexist. These hybrid morphologies arise either solely due to substrate affinity and confinement or are induced due to the applied electric field. The dependence of the critical fields for transition between the various phases on substrate strength, film thickness and dielectric contrast is discussed. Some preliminary 3D results are also presented to corroborate the presence of hybrid morphologies.

cond-mat.mtrl-sci↗

arXiv2004

Rotational friction on small globular proteins: Combined dielectric and hydrodynamic effect

Rotational friction on proteins and macromolecules is known to derive contributions from at least two distinct sources -- hydrodynamic (due to viscosity) and dielectric friction (due to polar interactions). In the existing theoretical approaches, the effect of the latter is taken into account in an {\it ad hoc} manner, by increasing the size of the protein with the addition of a hydration layer. Here we calculate the rotational dielectric friction on a protein ($ζ_{DF}$) by using a generalized arbitrary charge distribution model (where the charges are obtained from quantum chemical calculation) and the hydrodynamic friction with stick boundary condition, ($ζ_{hyd}^{stick}$) by using the sophisticated theoretical technique known as tri-axial ellipsoidal method, formulated by Harding [S. E. Harding, Comp. Biol. Med. {\bf 12}, 75 (1982)]. The calculation of hydrodynamic friction is done with only the dry volume of the protein (no hydration layer). We find that the total friction obtained by summing up $ζ_{DF}$ and $ζ_{hyd}^{stick}$ gives reasonable agreement with the experimental results, i.e., $ζ_{exp} \approx ζ_{DF} + ζ_{hyd}^{stick}$.

physics.bio-ph↗

arXiv2002

Origin of the Sub-diffusive Behavior and Crossover From a Sub-diffusive to a Super-diffusive Dynamics Near a Biological Surface

Diffusion of a tagged particle near a constraining biological surface is examined numerically by modeling the surface-water interaction by an effective potential. The effective potential is assumed to be given by an asymmetric double well constrained by a repulsive surface towards $r=0$ and unbound at large distances. The time and space dependent probability distribution $P(r,t)$ of the underlying Smoluchowski equation is solved by using Crank-Nicholson method. The mean square displacement shows a transition from sub-diffusive (exponent $α\sim$ 0.43) to a super-diffusive (exponent $α\sim$ 1.75) behavior with time and ultimately to a diffusive dynamics. The decay of self intermediate scattering function ($F_{s}(k,t)$) is non-exponential in general and shows a power law behavior at the intermediate time. Such features have been observed in several recent computer simulation studies on dynamics of water in protein and micellar hydration shell. The present analysis provides a simple microscopic explanation for the transition from the sub-diffusivity and super-diffusivity. {\em The super-diffusive behavior is due to escape from the well near the surface and the sub-diffusive behavior is due to return of quasi-free molecules to form the bound state again, after the initial escape}

cond-mat.soft↗

arXiv2002

Contact Pair Dynamics During Folding of a Model Globular Protein, Hp-36

The dynamics of contact pair formation between various hydrophobic residues during folding of a model protein Hp-36 is investigated by Brownian dynamics simulation. Hydropathy scale and non-local helix propensity of amino acids are used to model the complex interaction potential. The resulting structure of the model protein mimics the native state of the real protein with a $RMSD$ of 4.5 Å. A contact pair distance time correlation function (CPCF), $C_{P}^{ij}(t)$, is introduced which shows multistage decay, including a {\it slow late stage dynamics} for a few specific pairs. {\it These pairs determine the long time folding rate}. Dynamics can be correlated with the landscape, relative contact order and topological contact.

cond-mat.soft↗

arXiv2000

Re-entrant behavior of relaxation time with viscosity at varying composition in binary mixtures

In order to understand the long known anomalies in the composition dependence of diffusion and viscosity of binary mixtures, we introduce here two new models and carry out extensive molecular dynamic simulations. In these models, the two molecular species (A and B) have the same diameter and mass. In model I the inter-species interaction is more attractive than that between the pure components, while the reverse is true for model II. Simulations and also mode coupling theory calculations reveal that the models can capture a wide variety of behavior observed in experiments, most interesting among them are the non-monotonic variation of diffusion and viscosity with the composition and the re-entrant viscosity dependence of the relaxation time.

cond-mat.stat-mech↗