Title RNA 3D structure analysis and prediction / Neocles Leontis, Eric Westhof, editors

Published Berlin ; New York : Springer, ©2012

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Description 1 online resource Series Nucleic acids and molecular biology, 0933-1891 ; v. 27 Nucleic acids and molecular biology ; v. 27. Contents Introduction / Michael Levitt -- Modeling RNA Molecules / Neocles Leontis and Eric Westhof -- Methods for Predicting RNA Secondary Structure / Kornelia Aigner, Fabian Dreßen and Gerhard Steger -- Why Can't We Predict RNA Structure At Atomic Resolution? / Parin Sripakdeevong, Kyle Beauchamp and Rhiju Das -- Template-Based and Template-Free Modeling of RNA 3D Structure: Inspirations from Protein Structure Modeling / Kristian Rother, Magdalena Rother, Michał Boniecki, Tomasz Puton and Konrad Tomala, et al. -- The RNA Folding Problems: Different Levels of sRNA Structure Prediction / Fredrick Sijenyi, Pirro Saro, Zheng Ouyang, Kelly Damm-Ganamet and Marcus Wood, et al. -- Computational Prediction and Modeling Aid in the Discovery of a Conformational Switch Controlling Replication and Translation in a Plus-Strand RNA Virus / Wojciech K. Kasprzak and Bruce A. Shapiro -- Methods for Building and Refining 3D Models of RNA / Samuel C. Flores, Magdalena Jonikas, Christopher Bruns, Joy P. Ku and Jeanette Schmidt, et al. -- Multiscale Modeling of RNA Structure and Dynamics / Feng Ding and Nikolay V. Dokholyan -- Statistical Mechanical Modeling of RNA Folding: From Free Energy Landscape to Tertiary Structural Prediction / Song Cao and Shi-Jie Chen -- Simulating Dynamics in RNA-Protein Complexes / John Eargle and Zaida Luthey-Schulten -- Quantum Chemical Studies of Recurrent Interactions in RNA 3D Motifs / Jiří Šponer, Judit E. Šponer and Neocles B. Leontis -- Nonredundant 3D Structure Datasets for RNA Knowledge Extraction and Benchmarking / Neocles B. Leontis and Craig L. Zirbel -- Ions in Molecular Dynamics Simulations of RNA Systems / Pascal Auffinger -- Modeling RNA Folding Pathways and Intermediates Using Time-Resolved Hydroxyl Radical Footprinting Data / Joshua S. Martin, Paul Mitiguy and Alain Laederach -- A Top-Down Approach to Determining Global RNA Structures in Solution Using NMR and Small-Angle X-ray Scattering Measurements / Yun-Xing Wang, Jinbu Wang and Xiaobing Zuo -- RNA Structure Determination by Structural Probing and Mass Spectrometry: MS3D / A.E. Hawkins and D. Fabris Summary With the dramatic increase in RNA 3D structure determination in recent years, we now know that RNA molecules are highly structured. Moreover, knowledge of RNA 3D structures has proven crucial for understanding in atomic detail how they carry out their biological functions. Because of the huge number of potentially important RNA molecules in biology, many more than can be studied experimentally, we need theoretical approaches for predicting 3D structures on the basis of sequences alone. ¡This volume provides a comprehensive overview of current progress in the field by leading practitioners employing a variety of methods to model RNA 3D structures by homology, by fragment assembly, and by de novo energy and knowledge-based approaches Analysis Life sciences Biochemistry Nucleic acids Nucleic Acid Chemistry rna moleculaire structuur molecular conformation Bibliography Includes bibliographical references and index Notes English Subject RNA -- Computer simulation Three-dimensional imaging. Physical sciences. Nucleic acids. Mathematical models. Genetics -- Technique. Chemistry. RNA. Natural Science Disciplines Nucleic Acids Models, Theoretical Disciplines and Occupations Genetic Techniques Nucleic Acids, Nucleotides, and Nucleosides Investigative Techniques Chemicals and Drugs Analytical, Diagnostic and Therapeutic Techniques and Equipment Sequence Analysis, RNA Chemistry Models, Molecular RNA Sequence Analysis Imaging, Three-Dimensional three-dimensional. physical sciences. mathematical models. chemistry. SCIENCE -- Life Sciences -- Molecular Biology. RNA Physical sciences Nucleic acids Mathematical models Genetics -- Technique Chemistry Three-dimensional imaging Form Electronic book Author Leontis, Neocles B. Westhof, Eric. ISBN 9783642257407 3642257402 3642257399 9783642257391 3642445691 9783642445699 9781280786839 1280786833

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