Solvated dissipative electro-elastic network model of hydrated proteins

Elastic netwok models coarse grain proteins into a network of residue beads connected by springs. We add dissipative dynamics to this mechanical system by applying overdamped Langevin equations of motion to normal-mode vibrations of the network. In addition, the network is made heterogeneous and softened at the protein surface by accounting for hydration of the ionized residues. Solvation changes the network Hessian in two ways. Diagonal solvation terms soften the spring constants and off-diagonal dipole-dipole terms correlate displacements of the ionized residues. The model is used to formulate the response functions of the electrostatic potential and electric field appearing in theories of redox reactions and spectroscopy. We also formulate the dielectric response of the protein and find that solvation of the surface ionized residues leads to a slow relaxation peak in the dielectric loss spectrum, about two orders of magnitude slower than the main peak of protein relaxation. Finally, the solvated network is used to formulate the allosteric response of the protein to ion binding. The global thermodynamics of ion binding is not strongly affected by the network solvation, but it dramatically enhances conformational changes in response to placing a charge at the active site of the protein

Terahertz response of dipolar impurities in polar liquids: On anomalous dielectric absorption of protein solutions

A theory of radiation absorption by dielectric mixtures is presented. The coarse-grained formulation is based on the wavevector-dependent correlation functions of molecular dipoles of the host polar liquid and a density-density structure factor of the positions of the solutes. A nonlinear dependence of the absorption coefficient on the solute concentration is predicted and originates from the mutual polarization of the liquid surrounding the solutes by the collective field of the solute dipoles aligned along the radiation field. The theory is applied to terahertz absorption of hydrated saccharides and proteins. While the theory gives an excellent account of the observations for saccharides without additional assumptions and fitting parameters, experimental absorption coefficient of protein solutions significantly exceeds theoretical calculations within standard dielectric models and shows a peak against the protein concentration. A substantial polarization of protein's hydration shell is required to explain the differences between standard theories and experiment. When the correlation function of the total dipole moment of the protein with its hydration shell from numerical simulations is used in the present analytical model an absorption peak similar to that seen is experiment is obtained. The result is sensitive to the specifics of protein-protein interactions in solution. Numerical testing of the theory requires the combination of terahertz dielectric and small-angle scattering measurements.Comment: 11 p

Pressure-temperature Phase Diagram of Polycrystalline UCoGe Studied by Resistivity Measurement

Recently, coexistence of ferromagnetism (T_Curie = 2.8K) and superconductivity (T_sc = 0.8K) has been reported in UCoGe, a compound close to a ferromagnetic instability at ambient pressure P. Here we present resistivity measurements under pressure on a UCoGe polycrystal. The phase diagram obtained from resistivity measurements on a polycrystalline sample is found to be qualitatively different to those of all other ferromagnetic superconductors. By applying high pressure, ferromagnetism is suppressed at a rate of 1.4 K/GPa. No indication of ferromagnetic order has been observed above P ~ 1GPa. The resistive superconducting transition is, however, quite stable in temperature and persists up to the highest measured pressure of about 2.4GPa. Superconductivity would therefore appear also in the paramagnetic phase. However, the appearance of superconductivity seems to change at a characteristic pressure P* ~ 0.8GPa. Close to a ferromagnetic instability, the homogeneity of the sample can influence strongly the electronic and magnetic properties and therefore bulk phase transitions may differ from the determination by resistivity measurements.Comment: 4 pages, 4 figures, submitted to J. Phys. Soc. Jp

On the principal bifurcation branch of a third order nonlinear long-wave equation

We study the principal bifurcation curve of a third order equation which describes the nonlinear evolution of several systems with a long--wavelength instability. We show that the main bifurcation branch can be derived from a variational principle. This allows to obtain a close estimate of the complete branch. In particular, when the bifurcation is subcritical, the large amplitude stable branch can be found in a simple manner.Comment: 11 pages, 3 figure

Phonon dispersion and electron-phonon interaction in peanut-shaped fullerene polymers

We reveal that the periodic radius modulation peculiar to one-dimensional (1D) peanut-shaped fullerene (C$_{60}$) polymers exerts a strong influence on their low-frequency phonon states and their interactions with mobile electrons. The continuum approximation is employed to show the zone-folding of phonon dispersion curves, which leads to fast relaxation of a radial breathing mode in the 1D C$_{60}$ polymers. We also formulate the electron-phonon interaction along the deformation potential theory, demonstrating that only a few set of electron and phonon modes yields a significant magnitude of the interaction relevant to the low-temperature physics of the system. The latter finding gives an important implication for the possible Peierls instability of the C$_{60}$ polymers suggested in the earlier experiment.Comment: 9 pages, 8 figure

Quantum Tricritical Points in NbFe2_2

Quantum critical points (QCPs) emerge when a 2nd order phase transition is suppressed to zero temperature. In metals the quantum fluctuations at such a QCP can give rise to new phases including unconventional superconductivity. Whereas antiferromagnetic QCPs have been studied in considerable detail ferromagnetic (FM) QCPs are much harder to access. In almost all metals FM QCPs are avoided through either a change to 1st order transitions or through an intervening spin-density-wave (SDW) phase. Here, we study the prototype of the second case, NbFe$_2$. We demonstrate that the phase diagram can be modelled using a two-order-parameter theory in which the putative FM QCP is buried within a SDW phase. We establish the presence of quantum tricritical points (QTCPs) at which both the uniform and finite $q$ susceptibility diverge. The universal nature of our model suggests that such QTCPs arise naturally from the interplay between SDW and FM order and exist generally near a buried FM QCP of this type. Our results promote NbFe$_2$ as the first example of a QTCP, which has been proposed as a key concept in a range of narrow-band metals, including the prominent heavy-fermion compound YbRh$_2$Si$_2$.Comment: 21 pages including S

Instantons in N=1/2 Super Yang-Mills Theory via Deformed Super ADHM Construction

We study an extension of the ADHM construction to give deformed anti-self-dual (ASD) instantons in N=1/2 super Yang-Mills theory with U(n) gauge group. First we extend the exterior algebra on superspace to non(anti)commutative superspace and show that the N=1/2 super Yang-Mills theory can be reformulated in a geometrical way. By using this exterior algebra, we formulate a non(anti)commutative version of the super ADHM construction and show that the curvature two-form superfields obtained by our construction do satisfy the deformed ASD equations and thus we establish the deformed super ADHM construction. We also show that the known deformed U(2) one instanton solution is obtained by this construction.Comment: 32 pages, LaTeX, v2: typos corrected, references adde

Structural evolution in the neutron-rich nuclei 106Zr and 108Zr

The low-lying states in 106Zr and 108Zr have been investigated by means of {\beta}-{\gamma} and isomer spectroscopy at the RI beam factory, respectively. A new isomer with a half-life of 620\pm150 ns has been identified in 108Zr. For the sequence of even-even Zr isotopes, the excitation energies of the first 2+ states reach a minimum at N = 64 and gradually increase as the neutron number increases up to N = 68, suggesting a deformed sub-shell closure at N = 64. The deformed ground state of 108Zr indicates that a spherical sub-shell gap predicted at N = 70 is not large enough to change the ground state of 108Zr to the spherical shape. The possibility of a tetrahedral shape isomer in 108Zr is also discussed.Comment: 10 pages, 3 figures, Accepted for publication in Phys. Rev. Let