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Author: Peter Grassberger Publisher: World Scientific ISBN: 9814544272 Category : Science Languages : en Pages : 346
Book Description
Information on our detailed genetic code is increasing at a dramatic pace. We need to understand how that is translated into the three-dimensional structure of proteins in order to make use of the information. Progress in this field is hampered by the lack of precise force fields and of efficient codes for finding equilibrium configurations of heteropolymers. However, there has been rapid advance in recent years, and this volume discusses that.
Author: Peter Grassberger Publisher: World Scientific ISBN: 9814544272 Category : Science Languages : en Pages : 346
Book Description
Information on our detailed genetic code is increasing at a dramatic pace. We need to understand how that is translated into the three-dimensional structure of proteins in order to make use of the information. Progress in this field is hampered by the lack of precise force fields and of efficient codes for finding equilibrium configurations of heteropolymers. However, there has been rapid advance in recent years, and this volume discusses that.
Author: Peter Grassberger Publisher: World Scientific Publishing Company Incorporated ISBN: 9789810236588 Category : Science Languages : en Pages : 336
Book Description
To use information on genetic coding it is important to understand how it is translated into the three-dimensional structure of proteins. Progress is hampered by the lack of force fields and codes for finding equilibrium configurations o f heteropolymers. This text discusses advances in this area.
Author: Sara Sadeghi Publisher: ISBN: Category : Biopolymers Languages : en Pages : 176
Book Description
Biopolymers are one of the main components of living systems. Their sequence dictates their structure that ultimately determines their function. Many factors play key mechanical roles in the cell and one of the most abundant biopolymers that is involved in such tasks is the class of coiled-coil proteins. Various theoretical and experimental studies have been done to explore the mechanical properties of these proteins and there are now a number of single molecule measurements that measure their force response characteristics, making coiled-coils an excellent model system to test folding models connecting sequence to structure to function. In this thesis we have developed a coarse-grained atomistic model to study coiled-coil formation and explore both mechanical and thermal properties. Our model is able to reproduce known coiled-coil structures using only a simple hydrophobic-polar (HP) representation of their sequence and is able to explain the observed mechanical response measured in single molecule experiments. To address how common coiled-coil formation is with respect to all possible helix packs, we have evaluated the designability of the space of possible helical folds, define d as the number of sequences that can fold into a particular structure. We find that left-handed coils emerge as one of the most highly designable structures. From the designability calculation we can identify sequence patterns that design particular coiled-coil folds and mutations that lead to their instability. We also predict that designable coiled-coil structures are more mechanically stable than less designable helical packs.
Author: Panos M. Pardalos Publisher: American Mathematical Soc. ISBN: 0821804715 Category : Mathematics Languages : en Pages : 287
Book Description
This work contains refereed papers presented at an interdisciplinary scientific meeting attended by a mix of leading biochemists and computer scientists held at DIMACS in March 1995. It describes the development of a variety of new methods which are being developed for attacking the important problem of molecular structure. It is intended for graduate students and researchers in numerical analysis, molecular biology, biochemistry, computer science, engineering, and operations.
Author: Gary Benson Publisher: Springer Science & Business Media ISBN: 3540200762 Category : Science Languages : en Pages : 539
Book Description
This book constitutes the refereed proceedings of the Third International Workshop on Algorithms in Bioinformatics, WABI 2003, held in Budapest, Hungary, in September 2003. The 36 revised full papers presented were carefully reviewed and selected from 78 submissions. The papers are organized in topical sections on comparative genomics, database searching, gene finding and expression, genome mapping, pattern and motif discovery, phylogenetic analysis, polymorphism, protein structure, sequence alignment, and string algorithms.
Author: Andrzej Kolinski Publisher: Springer Science & Business Media ISBN: 144196889X Category : Science Languages : en Pages : 360
Book Description
The book gives a comprehensive review of the most advanced multiscale methods for protein structure prediction, computational studies of protein dynamics, folding mechanisms and macromolecular interactions. It approaches span a wide range of the levels of coarse-grained representations, various sampling techniques and variety of applications to biomedical and biophysical problems. This book is intended to be used as a reference book for those who are just beginning their adventure with biomacromolecular modeling but also as a valuable source of detailed information for those who are already experts in the field of biomacromolecular modeling and in related areas of computational biology or biophysics.
Author: Rick Russell Publisher: Springer Science & Business Media ISBN: 1461449545 Category : Science Languages : en Pages : 238
Book Description
This volume, written by experts in the field, discusses the current understanding of the biophysical principles that govern RNA folding, with featured RNAs including the ribosomal RNAs, viral RNAs, and self-splicing introns. In addition to the fundamental features of RNA folding, the central experimental and computational approaches in the field are presented with an emphasis on their individual strengths and limitations, and how they can be combined to be more powerful than any method alone; these approaches include NMR, single molecule fluorescence, site-directed spin labeling, structure mapping, comparative sequence analysis, graph theory, course-grained 3D modeling, and more. This volume will be of interest to professional researchers and advanced students entering the field of RNA folding.
Author: Peter Grassberger
Author: Peter Grassberger
Author: Peter Grassberger
Author: Sara Sadeghi
Author: Panos M. Pardalos
Author: Gary Benson
Author: Björn Rabenstein
Author: 
Author: Andrzej Kolinski
Author: Rick Russell
Author: Eamonn M. O'Toole