Force-extension curves for broken-rod macromolecules: Dramatic effects of different probing methods for two and three rods.

We study force-extension curves of a single semiflexible chain consisting of several rigid rods connected by flexible spacers. The atomic force microscopy and laser optical or magnetic tweezers apparatus stretching these rod-coil macromolecules are discussed. In addition, the stretching by external isotropic force is analyzed. The main attention is focused on computer simulation and analytical results. We demonstrate that the force-extension curves for rod-coil chains composed of two or three rods of equal length differ not only quantitatively but also qualitatively in different probe methods. These curves have an anomalous shape for a chain of two rods. End-to-end distributions of rod-coil chains are calculated by Monte Carlo method and compared with analytical equations. The influence of the spacer's length on the force-extension curves in different probe methods is analyzed. The results can be useful for interpreting experiments on the stretching of rod-coil block-copolymers.

Equivalence of chain conformations in the surface region of a polymer melt and a single Gaussian chain under critical conditions.

In the melt polymer conformations are nearly ideal according to Flory's ideality hypothesis. Silberberg generalized this statement for chains in the interfacial region. We check the Silberberg argument by analyzing the conformations of a probe chain end-grafted at a solid surface in a sea of floating free chains of concentration φ by the self-consistent field (SCF) method. Apart from the grafting, probe chain and floating chains are identical. Most of the results were obtained for a standard SCF model with freely jointed chains on a six-choice lattice, where immediate step reversals are allowed. A few data were generated for a five-choice lattice, where such step reversals are forbidden. These coarse-grained models describe the equilibrium properties of flexible atactic polymer chains at the scale of the segment length. The concentration was varied over the whole range from φ = 0 (single grafted chain) to φ = 1 (probe chain in the melt). The number of contacts with the surface, average height of the free end and its dispersion, average loop and train length, tail size distribution, end-point and overall segment distributions were calculated for a grafted probe chain as a function of φ, for several chain lengths and substrate∕polymer interactions, which were varied from strong repulsion to strong adsorption. The computations show that the conformations of the probe chain in the melt do not depend on substrate∕polymer interactions and are very similar to the conformations of a single end-grafted chain under critical conditions, and can thus be described analytically. When the substrate∕polymer interaction is fixed at the value corresponding to critical conditions, all equilibrium properties of a probe chain are independent of φ, over the whole range from a dilute solution to the melt. We believe that the conformations of all flexible chains in the surface region of the melt are close to those of an appropriate single chain in critical conditions, provided that one end of the single chain is fixed at the same point as a chain in the melt.

Reconciling lattice and continuum models for polymers at interfaces.

It is well known that lattice and continuum descriptions for polymers at interfaces are, in principle, equivalent. In order to compare the two models quantitatively, one needs a relation between the inverse extrapolation length c as used in continuum theories and the lattice adsorption parameter Δχ(s) (defined with respect to the critical point). So far, this has been done only for ideal chains with zero segment volume in extremely dilute solutions. The relation Δχ(s)(c) is obtained by matching the boundary conditions in the two models. For depletion (positive c and Δχ(s)) the result is very simple: Δχ(s) = ln(1 + c/5). For adsorption (negative c and Δχ(s)) the ideal-chain treatment leads to an unrealistic divergence for strong adsorption: c decreases without bounds and the train volume fraction exceeds unity. This due to the fact that for ideal chains the volume filling cannot be accounted for. We extend the treatment to real chains with finite segment volume at finite concentrations, for both good and theta solvents. For depletion the volume filling is not important and the ideal-chain result Δχ(s) = ln(1 + c/5) is generally valid also for non-ideal chains, at any concentration, chain length, or solvency. Depletion profiles can be accurately described in terms of two length scales: ρ = tanh(2)[(z + p)/δ], where the depletion thickness (distal length) δ is a known function of chain length and polymer concentration, and the proximal length p is a known function of c (or Δχ(s)) and δ. For strong repulsion p = 1/c (then the proximal length equals the extrapolation length), for weaker repulsion p depends also on chain length and polymer concentration (then p is smaller than 1/c). In very dilute solutions we find quantitative agreement with previous analytical results for ideal chains, for any chain length, down to oligomers. In more concentrated solutions there is excellent agreement with numerical self-consistent depletion profiles, for both weak and strong repulsion, for any chain length, and for any solvency. For adsorption the volume filling dominates. As a result c now reaches a lower limit c ≈ -0.5 (depending slightly on solvency). This limit follows immediately from the condition of a fully occupied train layer. Comparison with numerical SCF calculations corroborates that our analytical result is a good approximation. We suggest some simple methods to determine the interaction parameter (either c or Δχ(s)) from experiments. The relation Δχ(s)(c) provides a quantitative connection between continuum and lattice theories, and enables the use of analytical continuum results to describe the adsorption (and stretching) of lattice chains of any chain length. For example, a fully analytical treatment of mechanical desorption of a polymer chain (including the temperature dependence and the phase transitions) is now feasible.

Analytical theory of finite-size effects in mechanical desorption of a polymer chain.

We discuss a unique system that allows exact analytical investigation of first- and second-order transitions with finite-size effects: mechanical desorption of an ideal lattice polymer chain grafted with one end to a solid substrate with a pulling force applied to the other end. We exploit the analogy with a continuum model and use accurate mapping between the parameters in continuum and lattice descriptions, which leads to a fully analytical partition function as a function of chain length, temperature (or adsorption strength), and pulling force. The adsorption-desorption phase diagram, which gives the critical force as a function of temperature, is nonmonotonic and gives rise to re-entrance. We analyze the chain length dependence of several chain properties (bound fraction, chain extension, and heat capacity) for different cross sections of the phase diagram. Close to the transition a single parameter (the product of the chain length N and the deviation from the transition point) describes all thermodynamic properties. We discuss finite-size effects at the second-order transition (adsorption without force) and at the first-order transition (mechanical desorption). The first-order transition has some unusual features: The heat capacity in the transition region increases anomalously with temperature as a power law, metastable states are completely absent, and instead of a bimodal distribution there is a flat region that becomes more pronounced with increasing chain length. The reason for this anomaly is the absence of an excess surface energy for the boundary between adsorbed and stretched coexisting phases (this boundary is one segment only): The two states strongly fluctuate in the transition point. The relation between mechanical desorption and mechanical unzipping of DNA is discussed.

Temperature effects in the mechanical desorption of an infinitely long lattice chain: re-entrant phase diagrams.

We consider the mechanical desorption of an infinitely long lattice polymer chain tethered at one end to an adsorbing surface. The external force is applied to the free end of the chain and is normal to the surface. There is a critical value of the desorption force f(tr) at which the chain desorbs in a first-order phase transition. We present the phase diagram for mechanical desorption with exact analytical solutions for the detachment curve: the dependence of f(tr) on the adsorption energy epsilon (at fixed temperature T) and on T (at fixed epsilon). For most lattice models f(tr)(T) displays a maximum. This implies that at some given force the chain is adsorbed in a certain temperature window and desorbed outside it: the stretched state is re-entered at low temperature. We also discuss the energy and heat capacity as a function of T; these quantities display a jump at the transition(s). We analyze short-range and long-range excluded-volume effects on the detachment curve f(tr)(T). For short-range effects (local stiffness), the maximum value of f(tr) decreases with stiffness, and the force interval where re-entrance occurs become narrower for stiffer chains. For long-range excluded-volume effects we propose a scaling f(tr) approximately T(1-nu)(T(c)-T)(nu/phi) around the critical temperature T(c), where nu=0.588 is the Flory exponent and phi approximately 0.5 the crossover exponent, and we estimated the amplitude. We compare our results for a model where immediate step reversals are forbidden with recent self-avoiding walk simulations. We conclude that re-entrance is the general situation for lattice models. Only for a zigzag lattice model (where both forward and back steps are forbidden) is the coexistence curve f(tr)(T) monotonic, so that there is no re-entrance.

Negative compressibility and nonequivalence of two statistical ensembles in the escape transition of a polymer chain.

An end-tethered polymer chain compressed between two pistons undergoes an abrupt transition from a confined coil state to an inhomogeneous flowerlike conformation partially escaped from the gap. This phase transition is first order in the thermodynamic limit of infinitely long chains. A rigorous analytical theory is presented for a Gaussian chain in two ensembles: (a) the H-ensemble, in which the distance H between the pistons plays the role of the independent control parameter, and (b) the conjugate f-ensemble, in which the external compression force f is the independent parameter. Details about the metastable chain configurations are analyzed by introducing the Landau free energy as a function of the chain stretching order parameter. The binodal and spinodal lines, as well as the barrier heights between the stable and metastable states in the free energy landscape, are presented in both ensembles. In the loop region for the average force with dependence on the distance H (i.e., in the H-ensemble) a negative compressibility exists, whereas in the f-ensemble the average distance as a function of the force is strictly monotonic. The average fraction of imprisoned segments and the lateral force, taken as functions of the distance H or the average H, respectively, have different behaviors in the two ensembles. These results demonstrate a clear counterexample of a main principle of statistical mechanics, stating that all ensembles are equivalent in the thermodynamic limit. The authors show that the negative compressibility in the escape transition is a purely equilibrium result and analyze in detail the origin of the nonequivalence of the ensembles. It is argued that it should be possible to employ the escape transition and its anomalous behavior in macroscopically homogeneous, but microscopically inhomogeneous, materials.

Partition function, metastability, and kinetics of the escape transition for an ideal chain.

An end-tethered polymer chain squeezed between two pistons undergoes an abrupt transition from a confined coil state to an inhomogeneous flower-like conformation partially escaped from the gap. We present a rigorous analytical theory for the equilibrium and kinetic aspects of this phenomenon for a Gaussian chain. Applying the analogy with the problem of the adsorption of an ideal chain constrained by one of its ends, we obtain a closed analytical expression for the exact partition function. Various equilibrium thermodynamic characteristics (the fraction of imprisoned segments, the average compression, and lateral forces) are calculated as a function of the piston separation. The force versus separation curve is studied in two complementary statistical ensembles, the constant force and the constant confinement width ones. The differences in these force curves are significant in the transition region for large systems, but disappear for small systems. The effects of metastability are analyzed by introducing the Landau free energy as a function of the chain stretching, which serves as the order parameter. The phase diagram showing the binodal and two spinodal lines is presented. We obtain the barrier heights between the stable and metastable states in the free energy landscape. The mean first passage time, i.e., the lifetime of the metastable coil and flower states, is estimated on the basis of the Fokker-Planck formalism. Equilibrium analytical theory for a Gaussian chain is complemented by numerical calculations for a lattice freely jointed chain model.

Exactly solvable model with stable and metastable states for a polymer chain near an adsorbing surface.

We report on the conformational properties and transitions of an ideal polymer chain near a solid surface. The chain is tethered with one of its ends at distance z(0) from an adsorbing surface. The surface is characterized by an adsorption parameter c. The exact expression for the partition function is available. We obtained the distribution of complex zeros of this function. The comparison with the Yang-Lee theory allows the characterization of the phase transitions. A first-order conformational transition from a coil to a (adsorbed) flower conformation occurs at c(*)=6z(0)/N. The flower is composed of a strongly stretched stem and a pancake that collects the remaining adsorbed segments. The degree of stretching of the coil or of the stem serves as an order parameter which parametrizes the analytical expressions of the Landau free energy. The phase diagram with one binodal and two spinodal lines is presented. The height of the barriers between metastable and stable states is obtained and the lifetime of metastable states is estimated. A two-state ansatz is used to develop scaling arguments to account for the effects of excluded volume.

[Description of cartilage tissue structure in solution by the mean field theory]. / Opisanie struktury khriashchevoi tkani v rastvore metodom srednego polia.

The connection between geometrical characteristics of the proteoglycan (its thickness Hp and the mean stretch of Rp) and the parameters of the initial chemical structure of proteoglycan molecule constituents are established. The calculations are carried out by a mean field method.

[Studies on the coil-globule transition by the Monte-Carlo method]. / Izuchenie perekhoda klubok - globula metodom Monte-Karlo.

The results of a dynamical Monte-Carlo study on the coil-globule and globule-coil transitions are presented. Self-avoiding chains of lengths N = 32 and 64 are investigated. The kinetic model included two- and three-bonds flips. The relaxation of the chain was induced by the abrupt change of the interaction between the monomers. The time evolution of the radius of gyration and the number of intramolecular contacts was obtained. It is established that the transition to the compact state occurs due to the contacts between the monomers close to each other along the chain. The results obtained are compared with the predictions of analytical theories.

[Helix-globule transitions of polypeptides selectively reacting with the interface]. / Perekhody spiral'--klubok v polipeptidakh, izbiratel'no vzaimodeistvuiushchikh s poverkhnost'iu razdela faz.

An analytical theory of helix-coil transitions for polypeptides in a solution near a flat and homogeneous interface is given. The following cases were considered: a) only the helical parts are absorbtively active; b) only the coiled sections of the chain are active in adsorption. It has been shown that the binding of the polymer chain to the surface is a result of a phase transition of a second order, moreover in case a) the presence of a secondary structure abruptly increases the ability of the macromolecules to bind to the interface. This largely increases the stability of the helical structure of the chain and leads to a practically complete spiralization of the macromolecule. The profile of the conformational transitions was strictly asymmetrical which is typical for the phase transitions. In case b) the process of binding resembles the adsorbtion of the Gaussian coils. In this case the rate of spiralization of the chain decreases in the course of binding and the degradation of the secondary structure is significant even if the helical state in volume is stable. The profile of the transition remains qualitatively similar to the helix-coil transition in volume but is displaced to the region of larger equilibrium constants.

[Conformational transitions in adsorbed macromolecules with secondary structure]. / Konformatsionnye perekhody v adsorbirovannykh makromolekulakh s vtorichnoi strukturoi.

An analytical theory is presented taking into account the effects of the flat adsorbing surface on the equilibrium properties of the long single-stranded macromolecule possessing a secondary structure. Change of the secondary structure is described in terms of Zimm--Bragg theory; adsorbtion properties are calculated for the lattice model without taking into account the 3-dimensional interactions. It is shown that the presence of the adsorbing surface sharpens helix-coil transition, displacing it towards the lower constants of equilibrium (s). A relation of the critical energy of adsorbtion (--epsilonkappa) on s is obtained at different values of the cooperativity factor sigma. This relationship represents a phase diagram of the system. Various sections of this phase diagram corresponding to different dependence of s and --epsilon on the external factors are considered. It is shown that the process of adsorbtion may occur in different manners: either cooperatively or by the phase transition of type II with jumps in one or in three points.