Construing the Pelly and Packwood-Magnuson Amendments: The D.C. Circuit Court Harpoons Executive Discretion—American Cetacean Society v. Baldridge, 768 F.2d 425 (D.C. Cir. 1985), cert. granted sub nom. Japan Whaling Association v. American Cetacean Society, 106 S. Ct. 787 (1986) (Nos. 85-954, 955)

The court declared that the Secretary of Commerce has no discretion to refuse certifying the Japanese for exceeding the IWC sperm whaling quota. The court permanently enjoined the Secretary from agreeing not to certify, and from failing to certify, any Japanese whaling activities exceeding IWC quotas. The court ordered the Secretary to certify the Japanese sperm whaling under both the Pelly and the Packwood-Magnuson Amendments. On appeal, the District of Columbia Circuit Court of Appeals affirmed the district court decision on slightly different grounds. The Supreme Court granted certiorari and will hear the case during the 1985-86 term. A careful examination of the whaling agreement, the Pelly and the Packwood-Magnuson Amendments, and the circuit court decision suggests that the Supreme Court should reverse the appellate court\u27s decision because the agreement is consistent with the amendments and the Secretary of Commerce had discretion not to certify the Japanese in this case

Topological Solitons and Folded Proteins

We propose that protein loops can be interpreted as topological domain-wall solitons. They interpolate between ground states that are the secondary structures like alpha-helices and beta-strands. Entire proteins can then be folded simply by assembling the solitons together, one after another. We present a simple theoretical model that realizes our proposal and apply it to a number of biologically active proteins including 1VII, 2RB8, 3EBX (Protein Data Bank codes). In all the examples that we have considered we are able to construct solitons that reproduce secondary structural motifs such as alpha-helix-loop-alpha-helix and beta-sheet-loop-beta-sheet with an overall root-mean-square-distance accuracy of around 0.7 Angstrom or less for the central alpha-carbons, i.e. within the limits of current experimental accuracy.Comment: 4 pages, 4 figure

Fractal dimension of domain walls in the Edwards-Anderson spin glass model

We study directly the length of the domain walls (DW) obtained by comparing the ground states of the Edwards-Anderson spin glass model subject to periodic and antiperiodic boundary conditions. For the bimodal and Gaussian bond distributions, we have isolated the DW and have calculated directly its fractal dimension $d_f$. Our results show that, even though in three dimensions $d_f$ is the same for both distributions of bonds, this is clearly not the case for two-dimensional (2D) systems. In addition, contrary to what happens in the case of the 2D Edwards-Anderson spin glass with Gaussian distribution of bonds, we find no evidence that the DW for the bimodal distribution of bonds can be described as a Schramm-Loewner evolution processes.Comment: 6 pages, 5 figures. Accepted for publication in PR

Stability of the Magnetic Monopole Condensate in three- and four-colour QCD

It is argued that the ground state of three- and four-colour QCD contains a monopole condensate, necessary for the dual Meissner effect to be the mechanism of confinement, and support its stability on the grounds that it gives the off-diagonal gluons an effective mass sufficient to remove the unstable ground state mode.Comment: jhep.cls, typos corrected, references added, some content delete

Elastic energy of proteins and the stages of protein folding

We propose a universal elastic energy for proteins, which depends only on the radius of gyration $R_{g}$ and the residue number $N$. It is constructed using physical arguments based on the hydrophobic effect and hydrogen bonding. Adjustable parameters are fitted to data from the computer simulation of the folding of a set of proteins using the CSAW (conditioned self-avoiding walk) model. The elastic energy gives rise to scaling relations of the form $R_{g}\sim N^{\nu}$ in different regions. It shows three folding stages characterized by the progression with exponents $\nu = 3/5, 3/7, 2/5$, which we identify as the unfolded stage, pre-globule, and molten globule, respectively. The pre-globule goes over to the molten globule via a break in behavior akin to a first-order phase transition, which is initiated by a sudden acceleration of hydrogen bonding

Absorption/Expulsion of Oligomers and Linear Macromolecules in a Polymer Brush

The absorption of free linear chains in a polymer brush was studied with respect to chain size $L$ and compatibility $\chi$ with the brush by means of Monte Carlo (MC) simulations and Density Functional Theory (DFT) / Self-Consistent Field Theory (SCFT) at both moderate, $\sigma_g = 0.25$, and high, $\sigma_g = 1.00$, grafting densities using a bead-spring model. Different concentrations of the free chains $0.0625 \le \phi_o \le 0.375$ are examined. Contrary to the case of $\chi = 0$ when all species are almost completely ejected by the polymer brush irrespective of their length $L$, for $\chi < 0$ we find that the degree of absorption (absorbed amount) $\Gamma(L)$ undergoes a sharp crossover from weak to strong ($\approx 100$) absorption, discriminating between oligomers, $1\le L\le 8$, and longer chains. For a moderately dense brush, $\sigma_g = 0.25$, the longer species, $L > 8$, populate predominantly the deep inner part of the brush whereas in a dense brush $\sigma_g = 1.00$ they penetrate into the "fluffy" tail of the dense brush only. Gyration radius $R_g$ and end-to-end distance $R_e$ of absorbed chains thereby scale with length $L$ as free polymers in the bulk. Using both MC and DFT/SCFT methods for brushes of different chain length $32 \le N \le 256$, we demonstrate the existence of unique {\em critical} value of compatibility $\chi = \chi^{c}<0$. For $\chi^{c}(\phi_o)$ the energy of free chains attains the {\em same} value, irrespective of length $L$ whereas the entropy of free chain displays a pronounced minimum. At $\chi^{c}$ all density profiles of absorbing chains with different $L$ intersect at the same distance from the grafting plane. The penetration/expulsion kinetics of free chains into the polymer brush after an instantaneous change in their compatibility $\chi$ displays a rather rich behavior. We find three distinct regimes of penetration kinetics of free chains regarding the length $L$: I ($1\le L\le 8$), II ($8 \le L \le N$), and III ($L > N$), in which the time of absorption $\tau$ grows with $L$ at a different rate. During the initial stages of penetration into the brush one observes a power-law increase of $\Gamma \propto t^\alpha$ with power $\alpha \propto -\ln \phi_o$ whereby penetration of the free chains into the brush gets {\em slower} as their concentration rises

Binding branched and linear DNA structures: from isolated clusters to fully bonded gels

The proper design of DNA sequences allows for the formation of well defined supramolecular units with controlled interactions via a consecution of self-assembling processes. Here, we benefit from the controlled DNA self-assembly to experimentally realize particles with well defined valence, namely tetravalent nanostars (A) and bivalent chains (B). We specifically focus on the case in which A particles can only bind to B particles, via appropriately designed sticky-end sequences. Hence AA and BB bonds are not allowed. Such a binary mixture system reproduces with DNA-based particles the physics of poly-functional condensation, with an exquisite control over the bonding process, tuned by the ratio, r, between B and A units and by the temperature, T. We report dynamic light scattering experiments in a window of Ts ranging from 10{\deg}C to 55{\deg}C and an interval of r around the percolation transition to quantify the decay of the density correlation for the different cases. At low T, when all possible bonds are formed, the system behaves as a fully bonded network, as a percolating gel and as a cluster fluid depending on the selected r.Comment: 15 pages, 11 figure

Polymer Brushes in Cylindrical Pores: Simulation versus Scaling Theory

The structure of flexible polymers endgrafted in cylindrical pores of diameter D is studied as a function of chain length N and grafting density \sigma, assuming good solvent conditions. A phenomenological scaling theory, describing the variation of the linear dimensions of the chains with \sigma, is developed and tested by Molecular Dynamics simulations of a bead-spring model.Comment: 35 pages, 38 figure

Cooperative Dynamics in Unentangled Polymer Fluids

We present a Generalized Langevin Equation for the dynamics of interacting semiflexible polymer chains, undergoing slow cooperative dynamics. The calculated Gaussian intermolecular center-of-mass and monomer potentials, wich enter the GLE, are in quantitative agreement with computer simulation data. The experimentally observed, short-time subdiffusive regime of the polymer mean-square displacements, emerges here from the competition between the intramolecular and the intermolecular mean-force potentials.Comment: 9 pages, latex, 3 figure