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Structure and Dynamics of Confined Polymers

The primary goal of this book is to explore the physical properties of polymers in confined spaces at the nanometer scale, with a particular emphasis on determining the mechanisms by which polymers are transported through narrow interstices. A variety of pore structures that polymers can penetrate have recently been discovered, and it is now possible to probe the dynamics of the interactions between polymers and the penetrating molecules.The experimental and theoretical advances discussed include: - Mechanical properties of single molecules; - Detection & characterization of single polymers transported through narrow ion channels; - Direct measurement of the energetics and dynamics of polymer transport through a pore; - Statistical mechanical theories for single polymer transport through a narrow pore; - Novel polymer separations techniques not based on cross-linked gels; - Physics of polymer-protein interactions. The book also explores potential scientific and technological applications that can exploit these systems, with the aim of stimulating new research in this highly multidisciplinary field.
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Table of Contents

Preface. Contributing Authors. Workshop Participants. Profound implications for biophysics of the polymer threading a membrane transition; E.A. DiMarzio. Phage DNA transport across membranes; L. Letellier. Translocation of macromolecules across membranes and through aqueous channels: Translocation across membranes; S.M. Simon. Protein translocation across the outer membrane of mitochondria: Structure and function of the TOM complex of Neurospora crassa; S. Nussberger, W. Neupert. Protein translocation channels in mitochondria: TIM & TOM channels; K.W. Kinnally. Sizing channels with neutral polymers; O.V. Krasilnikov. Dynamic partitioning of neutral polymers into a single ion channel; S.M. Bezrukov, J.J. Kazianowicz. Branched polymers inside nanoscale pores; C. Gay, et al. Physics of DNA threading through a nanometer pore and applications to simultaneous multianalyte sensing; J.J. Kasianowicz, et al. Mechanism of ionic current blockades during polymer transport through pores of nanometer dimensions; D.W. Deamer, et al. Using nanopores to discriminate between single molecules of DNA; D. Branton, A. Meller. Use of a nanoscale pore to read short segments within single polynucleotide molecules; M.A. Akeson, et al. Polymer dynamics in microporous media; B. Akerman. Entropic barrier theory of polymer translocation; M. Muthukumar. Polymer translocation through a 'complicated' pore; D.K. Lubensky. The polymer barrier crossing problem; W. Sung, P. Jun Park. Brownian tatchets and their application to biological transport processes and macromolecular separation; I. Derenyi, R.D. Astumian. Composition and structural dynamics of vertebrate striated muscle thick filaments Role of myosin-associated proteins; Z.A. Podlubnaya. Force-driven folding and unfoldingtransitions in single polymer strand manipulation; M.S.Z. Kellermayer, et al. Dynamics of actin filaments in motility assays. A microscopic model and its numerical simulation; Z. Farkas, et al. Conformation-dependent sequence design of copolymers. Example of bio-evolution mimetics approach; A.R. Khokhlov, et al. Single molecule nucleic acid analysis by fluorescence flow cytometry; P.M. Goodwin, et al. Fluorescence energy transfer reagents for DNA sequencing and analysis. High throughout fluorescent DNA; J. Ju. Index.

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