Homology Modeling

Methods and Protocols
2023
ISBN: 978-1-0716-2973-4
Verlag: Springer US

Buch, Englisch, Band 2627, 376 Seiten, Book w. online files / update, Format (B × H): 183 mm x 260 mm, Gewicht: 932 g

Reihe: Methods in Molecular Biology

This detailed volume provides state-of-the-art methodologies and reviews of important topics in the field of homology modeling. From homology modeling in the twilight zone and improving accuracy through sequence space analysis to approaches to construct multi-protein complex models, the book explores a wide variety of uses and applications of this valuable technique. Written for the highly successful Methods in Molecular Biology series, the chapters include introductions to their respective topics, lists of the necessary programs, webservers, and databases, step-by-step and readily reproducible protocols, as well as tips on troubleshooting and avoiding known pitfalls.

Authoritative and practical, Homology Modeling: Methods and Protocols serves as an ideal guide to recent homology modeling procedures, assumptions made, and model quality assessment that will illuminate the black box of homology modeling for novice readers and broaden the knowledge of this methodology for professionals.

Zielgruppe

Professional/practitioner

Autoren/Hrsg.

Filipek, S¿awomir

Filipek, Slawomir

Fachgebiete

• Naturwissenschaften Chemie Chemie Allgemein
• Technische Wissenschaften Maschinenbau | Werkstoffkunde Technische Mechanik | Werkstoffkunde Materialwissenschaft: Biomaterialien, Nanomaterialien, Kohlenstoff
• Naturwissenschaften Biowissenschaften Angewandte Biologie Bioinformatik
• Technische Wissenschaften Verfahrenstechnik | Chemieingenieurwesen | Biotechnologie Biotechnologie

Inhaltsverzeichnis

Homology Modeling in the Twilight Zone: Improved Accuracy by Sequence Space Analysis.- Illuminating the ‘Twilight Zone’: Advances in Difficult Protein Modeling.- Contact-Assisted Threading in Low-Homology Protein Modeling.- Omics and Remote Homology Integration to Decipher Protein Functionality.- Easy not Easy: Comparative Modeling with High Sequence Identity Templates.- Quality Estimates for 3D Protein Models.- Using Local Protein Model Quality Estimates to Guide a Molecular Dynamics Based Refinement Strategy.- Specificities of Modeling of Membrane Proteins Using Multi-Template Homology Modeling.- Homology Modeling of the G Protein-Coupled Receptors.- Modeling of Olfactory Receptors.- Analyses of Mutation Displacements from Homology Models.- Persistent Homology for RNA Data Analysis.- Computational Methods to Predict Intrinsically Disordered Regions and Functional Regions in Them.- Homology Modeling of Transporter Proteins.- Modeling of SARS-CoV-2 Virus Proteins: Implications on Its Proteome.- Homology Modeling of Antibody Variable Regions: Methods and Applications.- 3D-BMPP: 3D Beta-Barrel Membrane Protein Predictor.- Protein Homology Modeling for Effective Drug Design.- Specificities of Protein Homology Modeling for Allosteric Drug Design.- Modeling of Protein Complexes.