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Titlebook: Structural Bioinformatics; Methods and Protocol Zoltán Gáspári Book 2020 Springer Science+Business Media, LLC, part of Springer Nature 2020

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发表于 2025-3-21 17:11:10 | 显示全部楼层 |阅读模式
书目名称Structural Bioinformatics
副标题Methods and Protocol
编辑Zoltán Gáspári
视频video
概述Includes cutting-edge methods and protocols.Provides step-by-step detail essential for reproducible results.Contains key notes and implementation advice from the experts
丛书名称Methods in Molecular Biology
图书封面Titlebook: Structural Bioinformatics; Methods and Protocol Zoltán Gáspári Book 2020 Springer Science+Business Media, LLC, part of Springer Nature 2020
描述This volume looks at the latest techniques used to perform comparative structure analyses, and predict and evaluate protein-ligand interactions. The chapters in this book cover tools and servers such as LiteMol; Bio3D-Web; DALI; CATH; HoTMuSiC, a contact-base protein structure analysis tool known as CAD-Score; PyDockSaxs and HADDOCK; CombDock and DockStar; the BioMagResBank database; as well as BME and CoNSEnsX+. Written in the highly successful .Methods in Molecular Biology. series format, chapters include introductions to their respective topics, step-by-step, readily reproducible computational protocols, and tips on troubleshooting and avoiding known pitfalls..Cutting-edge and comprehensive, .Structural Bioinformatics: Methods and Protocols. is a practical guide for researchers to learn more about the aforementioned tools to further enhance their studies in the growing field of structural bioinformatics..Chapter 13 isavailable open access under a CC-BY 4.0 license via link.springer.com...
出版日期Book 2020
关键词PDB database; mmCIF; PDBml; NMR; BioMagResBank
版次1
doihttps://doi.org/10.1007/978-1-0716-0270-6
isbn_softcover978-1-0716-0272-0
isbn_ebook978-1-0716-0270-6Series ISSN 1064-3745 Series E-ISSN 1940-6029
issn_series 1064-3745
copyrightSpringer Science+Business Media, LLC, part of Springer Nature 2020
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Integrating Molecular Simulation and Experimental Data: A Bayesian/Maximum Entropy Reweighting Apprpect to the original simulation ensemble. The output of this procedure is a set of optimized weights that can be used to calculate other properties and distributions of these. Here, we provide a practical guide on how to obtain and use such weights, how to choose adjustable parameters and discuss shortcomings of the method.
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1064-3745 ation advice from the expertsThis volume looks at the latest techniques used to perform comparative structure analyses, and predict and evaluate protein-ligand interactions. The chapters in this book cover tools and servers such as LiteMol; Bio3D-Web; DALI; CATH; HoTMuSiC, a contact-base protein str
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Comparative Protein Structure Analysis with Bio3D-Web,f homologous proteins for which there are high-resolution structures available. Functionality is also provided for the generation of custom PDF, Word, and HTML analysis reports detailing all user-specified analysis settings and corresponding results. Bio3D-web is available at ., as a Docker image ., or downloadable source code ..
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Using MemBlob to Analyze Transmembrane Regions Based on Cryo-EM Maps,rmation on the exact localization of the membrane mimetics used in the experiment and can be used to extract the positional information of the protein within the membrane. MemBlob uses a structural model of the protein and an experimental electron density map to provide an estimation of the surface residues interacting with the membrane.
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Modeling of Multimolecular Complexes, on the interaction graph or, alternatively, a homology model or a cryo-electron microscopy (EM) density map of the entire complex. We demonstrate the two methods using RNA polymerase II with 12 subunits and TRiC/CCT chaperonin with 16 subunits.
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