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Written by experienced experts in the field, this book describes the basics to the extent necessary for reliably judging the results from molecular modeling calculations. Without unnecessary overhead, it leads readers from simple calculations on small molecules to the modeling of proteins and other relevant biomolecules. Beginners are guided through their first modeling experiment, while routine users of modeling software are provided with invaluable troubleshooting hints. A unique resource for students, researchers and lecturers, now available in this all-new, enlarged edition. "If the currently popular 'Dummies' series of computer books were to publish a volume on molecular modeling this would be it" (Journal of the American Chemical Society) "The book is well written and assumes no prior knowledge of molecular biology, statistical mechanics, or quantum chemistry. The authors provide practical hints for the application of the majority of available programs in computational chemistry" (Computers in Physics)
Biomolecules --- Proteins --- Molecules --- Drugs --- Ligand binding (Biochemistry) --- Structure --- Computer simulation --- Models --- Design --- fysicochemie --- Stereochemistry --- Computer simulation. --- Biomolecules - Structure - Computer simulation --- Proteins - Structure - Computer simulation --- Molecules - Models - Computer simulation --- Drugs - Design - Computer simulation --- Ligand binding (Biochemistry) - Computer simulation
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Biomolecules --- Proteins --- Molecules --- Drugs --- Biomolécules --- Protéines --- Molécules --- Médicaments --- Structure --- Computer simulation --- Models --- Design --- Simulation par ordinateur --- Modèles --- Conception --- Ligand binding (Biochemistry) --- Biomolecules - Structure - Computer simulation --- Proteins - Structure - Computer simulation --- Molecules - Models - Computer simulation --- Drugs - Design - Computer simulation --- Ligand binding (Biochemistry) - Computer simulation
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Computational structural biology has made tremendous progress over the last two decades, and this book provides a recent and broad overview of such computational methods in structural biology. It covers the impact of computational structural biology on protein structure prediction methods, macromolecular function and protein design, and key methods in drug discovery. It also addresses the computational challenges of experimental approaches in structural biology. In addition to reviewing the current state of computational structural biology, each chapter ends with a brief, visionary discussion
Computational biology. --- Protein folding --- Proteins --- Proteids --- Biomolecules --- Polypeptides --- Proteomics --- Folding of proteins --- Biology --- Bioinformatics --- Computer simulation. --- Mathematical models. --- Structure --- Folding --- Conformation --- Computational biology --- Drug design. --- Nucleic acid conformation. --- Protein conformation. --- Protein folding. --- Rna. --- Methods. --- Computer simulation --- Mathematical models --- Proteins - Structure - Computer simulation --- Protein folding - Computer simulation --- Proteins - Structure - Mathematical models --- Protein folding - Mathematical models
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Multiscale Approaches to Protein Modeling is a comprehensive review of the most advanced multiscale methods for protein structure prediction, computational studies of protein dynamics, folding mechanisms and macromolecular interactions. The approaches span a wide range of the levels of coarse-grained representations, various sampling techniques and variety of applications to biomedical and biophysical problems. Thanks to enormous progress in sequencing of genomic data, we presently know millions of protein sequences. At the same time, the number of experimentally solved protein structures is much smaller, ca. 60,000. This is because of the large cost of structure determination. Thus, theoretical, in silico, prediction of protein structures and dynamics is essential for understanding the molecular basis of drug action, metabolic and signaling pathways in living cells, designing new technologies in the life science and material sciences. Unfortunately, a “brute force” approach remains impractical. Folding of a typical protein (in vivo or in vitro) takes milliseconds to minutes, while state-of-the-art all-atom molecular mechanics simulations of protein systems can cover only a time period range of nanosecond to microseconds. This is the reason for the enormous progress in development of various mutiscale modeling techniques, applied to protein structure prediction, modeling of protein dynamics and folding pathways, in silico protein engineering, model-aided interpretation of experimental data, modeling of macromolecular assemblies and theoretical studies of protein thermodynamics. Coarse-graining of the proteins’ conformational space is a common feature of all these approaches, although the details and the underlying physical models span a very broad spectrum.
Models, Molecular. --- Proteins -- Structure -- Computer simulation. --- Proteins. --- Proteins --- Multiscale modeling --- Chemistry --- Human Anatomy & Physiology --- Health & Biological Sciences --- Physical Sciences & Mathematics --- Animal Biochemistry --- Biochemistry --- Mathematical models --- Multiscale modeling. --- Mathematical models. --- Multi-scale modeling --- Multiscale models --- Proteids --- Life sciences. --- Bioinformatics. --- Life Sciences. --- Protein Science. --- Protein Structure. --- Computational Biology/Bioinformatics. --- Multivariate analysis --- Biomolecules --- Polypeptides --- Proteomics --- Biochemistry. --- Bio-informatics --- Biological informatics --- Biology --- Information science --- Computational biology --- Systems biology --- Biological chemistry --- Chemical composition of organisms --- Organisms --- Physiological chemistry --- Medical sciences --- Data processing --- Composition --- Proteins . --- Proteins - Mathematical models
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There are several ways to represent the structure of a protein, and sophisticated computer technology has been applied to provide them in visually exciting ways. Technical details of all of the known proteins have also been captured in the Brookhaven Protein Databank. What has been lacking is a manual that describes how to interpret and analyze these exciting pictures, and to understand what they show about the architecture of the protein. This book teaches the reader to look at protein structure diagrams and extract the meaningful information that they provide. It also contains a complete atlas of all of the protein structures in the Brookhaven Protein Databank. Topics covered include: ball-and-stick models, shaded sphere models, schematic representations, tertiary structure and protein-ligand interactions, structure determination, and a wealth of information about the relevant computer systems.
Computer Simulation. --- Protein Conformation. --- ultrastructure. --- Conformation, Protein --- Conformations, Protein --- Protein Conformations --- Protein Folding --- Computerized Models --- In Silico --- Computer Models --- Computer Model --- Computer Simulations --- Computerized Model --- In Silicos --- Model, Computer --- Model, Computerized --- Models, Computerized --- Silico, In --- Silicos, In --- Simulations, Computer --- General biophysics --- General biochemistry --- Molecular biology --- Proteins --- Computer Simulation --- Protein Conformation --- #WSCH:MACV --- Models, Computer --- Simulation, Computer --- Proteids --- Biomolecules --- Polypeptides --- Proteomics --- Structure --- Structure&delete& --- Atlases --- Computer simulation --- ultrastructure --- Atlases. --- Computer simulation. --- Structure. --- Proteins - Structure. --- Proteins - Structure - Atlases. --- Proteins - Structure - Computer simulation.
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Pharmacosynthesis. Pharmacochemistry --- Biomolecules --- Proteins --- Molecules --- Drugs --- Ligand binding (Biochemistry) --- Biomolécules --- Protéines --- Molécules --- Médicaments --- Ligands (Biochimie) --- Structure --- Computer simulation. --- Models --- Design --- Simulation par ordinateur --- Modèles --- Conception --- Fixation --- Computer simulation --- 539.2 --- -Drugs --- -Ligand binding (Biochemistry) --- -Molecules --- -Proteins --- -#WSCH:AAS2 --- 681.3*D48 --- 681.3*D48 Performance: measurements; modeling and prediction; monitors; operational analysis; queuing theory; simulation; stochastic analysis (Operating systems)--See also {?681.3*C2}; {681.3*D28}; {681.3*I6} --- Performance: measurements; modeling and prediction; monitors; operational analysis; queuing theory; simulation; stochastic analysis (Operating systems)--See also {?681.3*C2}; {681.3*D28}; {681.3*I6} --- Proteids --- Polypeptides --- Proteomics --- Binding, Ligand (Biochemistry) --- Biochemistry --- Dye-ligand affinity chromatography --- Radioligand assay --- Medicaments --- Medications --- Medicine (Drugs) --- Medicines (Drugs) --- Pharmaceuticals --- Prescription drugs --- Bioactive compounds --- Medical supplies --- Pharmacopoeias --- Chemotherapy --- Materia medica --- Pharmacology --- Pharmacy --- Biological molecules --- Molecular biology --- 539.2 Properties and structure of molecular systems --- Properties and structure of molecular systems --- -Computer simulation --- Biomolécules --- Protéines --- Molécules --- Médicaments --- Modèles --- #WSCH:AAS2 --- Structure&delete& --- Design&delete& --- Models&delete& --- Drugs - Design - Computer simulation --- Biomolecules - Structure - Computer simulation --- Proteins - Structure - Computer simulation --- Ligand binding (Biochemistry) - Computer simulation --- Molecules - Models - Computer simulation
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