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Title Homology modeling : methods and protocols / edited by Andrew J.W. Orry, Ruben Abagyan
Published New York : Humana Press, ©2012


Description 1 online resource (xi, 419 pages)
Series Methods in molecular biology, 1064-3745 ; 857
Methods in molecular biology ; 857.
Contents Classification of proteins : available structural space for molecular modeling / Antonina Andreeva -- Effective techniques for protein structure mining / Stefan J. Suhrer [and others] -- Methods for sequence-structure alignment / Ceslovas Venclovas -- Force fields for homology modeling / Andrew J. Bordner -- Automated protein structure modeling with SWISS-MODEL workspace and the protein model portal / Lorenza Bordoli and Torsten Schwede -- Practical introduction to molecular dynamics simulations : applications to homology modeling / Alessandra Nurisso, Antoine Daina, and Ross C. Walker -- Methods for accurate homology modeling by global optimization / Keehyoung Joo, Jinwoo Lee, and Jooyoung Lee -- Ligand-guided receptor optimization / Vsevolod Katritch, Manuel Rueda, and Ruben Abagyan -- Loop simulations / Maxim Totrov -- Methods of protein structure comparison / Irina Kufareva and Ruben Abagyan -- Homology modeling of class A G protein-coupled receptors / Stefano Costanzi -- Homology modeling of transporter proteins (carriers and ion channels) / Aina Westrheim Ravna and Ingebrigt Sylte -- Methods for the homology modeling of antibody variable regions / Aroop Sircar -- Investigating protein variants using structural calculation techniques / Jonas Carlsson and Bengt Persson -- Macromolecular assembly structures by comparative modeling and electron microscopy / Keren Lasker [and others] -- Preparation and refinement of model protein-ligand complexes / Andrew J.W. Orry and Ruben Abagyan -- Modeling peptide-protein interactions / Nir London, Barak Raveh, and Ora Schueler-Furman -- Comparison of common homology modeling algorithms : application of user-defined alignments / Michael A. Dolan, James W. Noah, and Darrell Hurt
Summary Knowledge about protein tertiary structure can guide experiments, assist in the understanding of structure-function relationships, and aid the design of new therapeutics for disease. Homology modeling is an in silico method that predicts the tertiary structure of an amino acid sequence based on a homologous experimentally determined structure. In, Homology Modeling: Methods and Protocols experts in the field describe each homology modeling step from first principles, provide case studies for challenging modeling targets and describe methods for the prediction of how other molecules such as drugs can interact with the protein. Written in the highly successful Methods in Molecular Biology series format, the chapters include the kind of detailed description and implementation advice that is crucial for getting optimal results in the laboratory. Thorough and intuitive, Homology Modeling: Methods and Protocols guides scientists in the available homology modeling methods
Analysis Life sciences
Protein Science
Protein Structure
moleculaire biologie
molecular biology
Proteins and Enzymes
Eiwitten en enzymen
Notes Includes index
Bibliography Includes bibliographical references and index
Notes English
Subject Sequence alignment (Bioinformatics)
Mathematical models.
Structure-activity relationships (Biochemistry)
Amino acids.
Sequence Homology
Models, Theoretical
Biochemical Phenomena
Pharmacological Phenomena
Amino Acids, Peptides, and Proteins
Investigative Techniques
Chemicals and Drugs
Genetic Phenomena
Physiological Phenomena
Chemical Phenomena
Analytical, Diagnostic and Therapeutic Techniques and Equipment
Phenomena and Processes
Models, Molecular
Structure-Activity Relationship
Sequence Homology, Amino Acid
Amino Acids
Sequence Alignment
mathematical models.
Structure-activity relationships (Biochemistry)
Mathematical models
Amino acids
Sequence alignment (Bioinformatics)
Genre/Form Laboratory manuals.
Manuels de laboratoire.
Form Electronic book
Author Orry, Andrew J. W
Abagyan, Ruben
ISBN 9781617795886