195 research outputs found
Bilayers of nucleosome core particles
Among the multiple effects involved in chromatin condensation and decondensation processes, interactions between nucleosome core particles are suspected to play a crucial role. We analyze them in the absence of linker DNA and added proteins, after the self-assembly of isolated nucleosome core particles under controlled ionic conditions. We describe an original lamellar mesophase forming tubules on the mesoscopic scale. High resolution imaging of cryosections of vitrified samples reveals how nucleosome core particles stack on top of one another into columns which themselves align to form bilayers that repel one another through a solvent layer. We deduce from this structural organization how the particles interact through attractive interactions between top and bottom faces and lateral polar interactions that originate in the heterogeneous charge distribution at the surface of the particle. These interactions, at work under conditions comparable with those found in the living cell, should be of importance in the mechanisms governing chromatin compaction in vivo
Defects in Chiral Columnar Phases: Tilt Grain Boundaries and Iterated Moire Maps
Biomolecules are often very long with a definite chirality. DNA, xanthan and
poly-gamma-benzyl-glutamate (PBLG) can all form columnar crystalline phases.
The chirality, however, competes with the tendency for crystalline order. For
chiral polymers, there are two sorts of chirality: the first describes the
usual cholesteric-like twist of the local director around a pitch axis, while
the second favors the rotation of the local bond-orientational order and leads
to a braiding of the polymers along an average direction. In the former case
chirality can be manifested in a tilt grain boundary phase (TGB) analogous to
the Renn-Lubensky phase of smectic-A liquid crystals. In the latter case we are
led to a new "moire" state with twisted bond order. In the moire state polymers
are simultaneously entangled, crystalline, and aligned, on average, in a common
direction. In the moire state polymers are simultaneously entangled,
crystalline, and aligned, on average, in a common direction. In this case the
polymer trajectories in the plane perpendicular to their average direction are
described by iterated moire maps of remarkable complexity, reminiscent of
dynamical systems.Comment: plain TeX, (33 pages), 17 figures, some uufiled and included, the
remaining available at ftp://ftp.sns.ias.edu/pub/kamien/ or by request to
[email protected]
Polydispersity and ordered phases in solutions of rodlike macromolecules
We apply density functional theory to study the influence of polydispersity
on the stability of columnar, smectic and solid ordering in the solutions of
rodlike macromolecules. For sufficiently large length polydispersity (standard
deviation ) a direct first-order nematic-columnar transition is
found, while for smaller there is a continuous nematic-smectic and
first-order smectic-columnar transition. For increasing polydispersity the
columnar structure is stabilized with respect to solid perturbations. The
length distribution of macromolecules changes neither at the nematic-smectic
nor at the nematic-columnar transition, but it does change at the
smectic-columnar phase transition. We also study the phase behaviour of binary
mixtures, in which the nematic-smectic transition is again found to be
continuous. Demixing according to rod length in the smectic phase is always
preempted by transitions to solid or columnar ordering.Comment: 13 pages (TeX), 2 Postscript figures uuencode
Equation of state for polymer liquid crystals: theory and experiment
The first part of this paper develops a theory for the free energy of
lyotropic polymer nematic liquid crystals. We use a continuum model with
macroscopic elastic moduli for a polymer nematic phase. By evaluating the
partition function, considering only harmonic fluctuations, we derive an
expression for the free energy of the system. We find that the configurational
entropic part of the free energy enhances the effective repulsive interactions
between the chains. This configurational contribution goes as the fourth root
of the direct interactions. Enhancement originates from the coupling between
bending fluctuations and the compressibility of the nematic array normal to the
average director. In the second part of the paper we use osmotic stress to
measure the equation of state for DNA liquid crystals in 0.1M to 1M NaCl
solutions. These measurements cover 5 orders of magnitude in DNA osmotic
pressure. At high osmotic pressures the equation of state, dominated by
exponentially decaying hydration repulsion, is independent of the ionic
strength. At lower pressures the equation of state is dominated by fluctuation
enhanced electrostatic double layer repulsion. The measured equation of state
for DNA fits well with our theory for all salt concentrations. We are able to
extract the strength of the direct electrostatic double layer repulsion. This
is a new and alternative way of measuring effective charge densities along
semiflexible polyelectrolytes.Comment: text + 5 figures. Submitted to PR
A twist in chiral interaction between biological helices
Using an exact solution for the pair interaction potential, we show that
long, rigid, chiral molecules with helical surface charge patterns have a
preferential interaxial angle ~((RH)^1/2)/L, where L is the length of the
molecules, R is the closest distance between their axes, and H is the helical
pitch. Estimates based on this formula suggest a solution for the puzzle of
small interaxial angles in a-helix bundles and in cholesteric phases of DNA.Comment: 7 pages, 2 figures, PDF file onl
Entropy-driven formation of a chiral liquid-crystalline phase of helical filaments
Author Posting. © The Authors, 2006. This article is posted here by permission of American Physical Society for personal use, not for redistribution. The definitive version was published in Physical Review Letters 96 (2006): 018305, doi:10.1103/PhysRevLett.96.018305.We study the liquid-crystalline phase behavior of a concentrated suspension of helical flagella isolated from Salmonella typhimurium. Flagella are prepared with different polymorphic states, some of which have a pronounced helical character while others assume a rodlike shape. We show that the static phase behavior and dynamics of chiral helices are very different when compared to simpler achiral hard rods. With increasing concentration, helical flagella undergo an entropy-driven first order phase transition to a liquid-crystalline state having a novel chiral symmetry.M. S. and R. O. are
supported by NIH Grant No. EB002583
Sliding Columnar Phase of DNA-Lipid Complexes
We introduce a simple model for DNA-cationic-lipid complexes in which
galleries between planar bilayer lipid lamellae contain DNA 2D smectic lattices
that couple orientationally and positionally to lattices in neighboring
galleries. We identify a new equilibrium phase in which there are long-range
orientational but not positional correlations between DNA lattices. We discuss
properties of this new phase such as its X-ray structure factor S(r), which
exhibits unusual exp(- const.ln^2 r) behavior as a function of in-plane
separation r.Comment: This file contains 4 pages of double column text and one postscript
figure. This version includes interactions between dislocations in a given
gallery and presents an improved estimate of the decoupling temperature. It
is the published versio
Iterated Moire Maps and Braiding of Chiral Polymer Crystals
In the hexagonal columnar phase of chiral polymers a bias towards cholesteric
twist competes with braiding along an average direction. When the chirality is
strong, screw dislocations proliferate, leading to either a tilt grain boundary
phase or a new "moire state" with twisted bond order. Polymer trajectories in
the plane perpendicular to their average direction are described by iterated
moire maps of remarkable complexity.Comment: 10 pages (plain tex) 3 figures uufiled and appende
Symmetries of Electrostatic Interaction between DNA Molecules
We study a model for pair interaction of DNA molecules generated by the
discrete dipole moments of base-pairs and the charges of phosphate groups, and
find noncommutative group of eighth order of symmetries that leave
invariant. We classify the minima using group and employ
numerical methods for finding them. The minima may correspond to several
cholesteric phases, as well as phases formed by cross-like conformations of
molecules at an angle close to , "snowflake phase". The results
depend on the effective charge of the phosphate group which can be modified
by the polycations or the ions of metals. The snowflake phase could exist for
above the threshold . Below there could be several cholesteric
phases. Close to the snowflake phase could change into the cholesteric
one at constant distance between adjacent molecules.Comment: 13 pages, 4 figure
Order and Frustration in Chiral Liquid Crystals
This paper reviews the complex ordered structures induced by chirality in
liquid crystals. In general, chirality favors a twist in the orientation of
liquid-crystal molecules. In some cases, as in the cholesteric phase, this
favored twist can be achieved without any defects. More often, the favored
twist competes with applied electric or magnetic fields or with geometric
constraints, leading to frustration. In response to this frustration, the
system develops ordered structures with periodic arrays of defects. The
simplest example of such a structure is the lattice of domains and domain walls
in a cholesteric phase under a magnetic field. More complex examples include
defect structures formed in two-dimensional films of chiral liquid crystals.
The same considerations of chirality and defects apply to three-dimensional
structures, such as the twist-grain-boundary and moire phases.Comment: 39 pages, RevTeX, 14 included eps figure
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