زیست شناسیزیست شیمی

فرمت: pdf
حجم: 13.4 مگابایت
قیمت: 2000 تومان

Computational Design of Ligand Binding Proteins

By


شناسنامه فارسی کتاب:
عنوان کتاب:

طراحی محاسباتی لیگاند اتصال پروتئین ها

موضوع کتاب:

Biology, Biochemistry

سال نشر:
ناشر: Humana Press
ویرایش:
شماره جلد:
تعداد صفحه: xvi+376
زبان: انگلیسی

This volume provides a collection of protocols and approaches for the creation of novel ligand binding proteins, compiled and described by many of today's leaders in the field of protein engineering. Chapters focus on modeling protein ligand binding sites, accurate modeling of protein-ligand conformational sampling, scoring of individual docked solutions, structure-based design program such as ROSETTA, protein engineering, and additional methodological approaches. Examples of applications include the design of metal-binding proteins and light-induced ligand binding proteins, the creation of binding proteins that also display catalytic activity, and the binding of larger peptide, protein, DNA and RNA ligands. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls.



1 In silico Identification and Characterization of Protein­Ligand Binding Sites - Daniel Barry Roche and Liam James McGuffin
2 Computational Modeling of Small Molecule Ligand Binding Interactions and Affinities - Marino Convertino and Nikolay V. Dokholyan
3 Binding Site Prediction of Proteins with Organic Compounds or Peptides Using GALAXY Web Servers - Lim Heo, Hasup Lee, Minkyung Baek, and Chaok Seok
4 Rosetta and the Design of Ligand Binding Sites - Rocco Moretti, Brian J. Bender, Brittany Allison, and Jens Meiler
5 PocketOptimizer and the Design of Ligand Binding Sites - Andre C. Stiel, Mehdi Nellen, and Birte Höcker
6 Proteus and the Design of Ligand Binding Sites - Savvas Polydorides, Eleni Michael, David Mignon, Karen Druart, Georgios Archontis, and Thomas Simonson
7 A Structure-Based Design Protocol for Optimizing Combinatorial Protein Libraries - Mark W. Lunt and Christopher D. Snow
8 Combined and Iterative Use of Computational Design and Directed Evolution for Protein–Ligand Binding Design - Meng Wang and Huimin Zhao
9 Improving Binding Affinity and Selectivity of Computationally Designed Ligand-Binding Proteins Using Experiments - Christine E. Tinberg and Sagar D. Khare
10 Computational Design of Multinuclear Metalloproteins Using Unnatural Amino Acids - William A. Hansen, Jeremy H. Mills, and Sagar D. Khare
11 De Novo Design of Metalloproteins and Metalloenzymes in a Three-Helix Bundle - Jefferson S. Plegaria and Vincent L. Pecoraro
12 Design of Light-Controlled Protein Conformations and Functions - Ryan S. Ritterson, Daniel Hoersch, Kyle A. Barlow, and Tanja Kortemme
13 Computational Introduction of Catalytic Activity into Proteins - Steve J. Bertolani, Dylan Alexander Carlin, and Justin B. Siegel
14 Generating High-Accuracy Peptide-Binding Data in High Throughput with Yeast Surface Display and SORTCERY - Lothar “Luther” Reich, Sanjib Dutta, and Amy E. Keating
15 Design of Specific Peptide–Protein Recognition - Fan Zheng and Gevorg Grigoryan
16 Computational Design of DNA-Binding Proteins - Summer Thyme and Yifan Song
17 Motif-Driven Design of Protein–Protein Interfaces - Daniel-Adriano Silva, Bruno E. Correia, and Erik Procko
18 Computational Reprogramming of T Cell Antigen Receptor Binding Properties - Timothy P. Riley, Nishant K. Singh, Brian G. Pierce, Brian M. Baker, and Zhiping Weng
19 Computational Modeling of T Cell Receptor Complexes - Timothy P. Riley, Nishant K. Singh, Brian G. Pierce, Zhiping Weng, and Brian M. Baker
20 Computational Design of Protein Linkers - Brian Kuhlman, Tim Jacobs, and Tom Linskey
21 Modeling of Protein–RNA Complex Structures Using Computational Docking Methods - Bharat Madan, Joanna M. Kasprzak, Irina Tuszynska, Marcin Magnus, Krzysztof Szczepaniak, Wayne K. Dawson, and Janusz M. Bujnicki
شابک/ISBN: 1493935674, 9781493935673