Overview

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.

Full Product Details

Author:   Sławomir Filipek
Publisher:   Springer-Verlag New York Inc.
Imprint:   Springer-Verlag New York Inc.
Edition:   1st ed. 2023
Volume:   2627
Weight:   0.932kg
ISBN:  

9781071629734

ISBN 10:   1071629735
Pages:   376
Publication Date:   24 March 2023
Audience:   Professional and scholarly ,  Professional & Vocational
Format:   Hardback
Publisher's Status:   Active
Availability:   Manufactured on demand  
We will order this item for you from a manufactured on demand supplier.

Table of Contents

1. Homology Modeling in the Twilight Zone: Improved Accuracy by Sequence Space Analysis             Rym Ben Boubaker, Asma Tiss, Daniel Henrion, and Marie Chabbert   2. Illuminating the ‘Twilight Zone’: Advances in Difficult Protein Modeling             Damian Bartuzi, Agnieszka A. Kaczor, and Dariusz Matosiuk   3. Contact-Assisted Threading in Low-Homology Protein Modeling             Sutanu Bhattacharya, Rahmatullah Roche, Md Hossain Shuvo, Bernard Moussad, and Debswapna Bhattacharya   4. Omics and Remote Homology Integration to Decipher Protein Functionality             Liliana Silva and Agostinho Antunes   5. Easy not Easy: Comparative Modeling with High Sequence Identity Templates             Diego Javier Zea, Elin Teppa, and Cristina Marino-Buslje   6. Quality Estimates for 3D Protein Models             Ali H.A. Maghrabi, Fahd M.F. Aldowsari, and Liam J. McGuffin   7. Using Local Protein Model Quality Estimates to Guide a Molecular Dynamics Based Refinement Strategy             Recep Adiyaman and Liam J. McGuffin   8. Specificities of Modeling of Membrane Proteins Using Multi-Template Homology Modeling             Julia Koehler Leman and Richard Bonneau   9. Homology Modeling of the G Protein-Coupled Receptors             Stefan Mordalski and Tomasz Kościółek   10. Modeling of Olfactory Receptors             Xueying Wang, H.C. Stephen Chan, and Shuguang Yuan   11. Analyses of Mutation Displacements from Homology Models             Mathilde Carpentier and Jacques Chomilier   12. Persistent Homology for RNA Data Analysis             Kelin Xia, Xiang Liu, and JunJie Wee   13. Computational Methods to Predict Intrinsically Disordered Regions and Functional Regions in Them             Hiroto Anbo, Motonori Ota, and Satoshi Fukuchi   14. Homology Modeling of Transporter Proteins             Ingebrigt Sylte, Mari Gabrielsen, and Kurt Kristiansen   15. Modeling of SARS-CoV-2 Virus Proteins: Implications on Its Proteome             Manish Sarkar and Soham Saha   16. Homology Modeling of Antibody Variable Regions: Methods and Applications             Harsh Bansia and Suryanarayanarao Ramakumar   17. 3D-BMPP: 3D Beta-Barrel Membrane Protein Predictor             Wei Tian, Meishan Lin, Ke Tang, Manisha Barse, Hammad Naveed, and Jie Liang   18. Protein Homology Modeling for Effective Drug Design             Natalia Gniado, Agata Krawczyk-Balska, Pakhuri Mehta, Przemysław Miszta, and Sławomir Filipek   19. Specificities of Protein Homology Modeling for Allosteric Drug Design             Jakub Jakowiecki, Urszula Orzeł, Aleksandra Gliździnska, Mariusz Możajew, and Sławomir Filipek   20. Modeling of Protein Complexes             Luigi Scietti and Federico Forneris

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