Cover for Advances in Protein Molecular and Structural Biology Methods

Advances in Protein Molecular and Structural Biology Methods

Book2022

Edited by:

Timir Tripathi and Vikash Kumar Dubey

Advances in Protein Molecular and Structural Biology Methods

Book2022

 

Cover for Advances in Protein Molecular and Structural Biology Methods

Edited by:

Timir Tripathi and Vikash Kumar Dubey

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Advances in Protein Molecular and Structural Biology Methods offers a complete overview of the latest tools and methods applicable to the study of proteins at the molecular and str ... read full description

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  2. Book chapterAbstract only

    Chapter 1 - Strategies to improve the expression and solubility of recombinant proteins in E. coli

    Niharika Nag, Heena Khan and Timir Tripathi

    Pages 1-12

  3. Book chapterAbstract only

    Chapter 2 - Advances in heterologous protein expression strategies in yeast and insect systems

    Meenakshi Singh, Smita Gupta, ... Sudhir Kumar Singh

    Pages 13-30

  4. Book chapterAbstract only

    Chapter 3 - Methods for transient expression and purification of monoclonal antibodies in mammalian cells

    Suchitra Kamle, Dawei Li, ... Jack A. Elias

    Pages 31-39

  5. Book chapterAbstract only

    Chapter 4 - Methods for recombinant production and purification of intrinsically disordered proteins

    Steffen P. Graether

    Pages 41-48

  6. Book chapterAbstract only

    Chapter 5 - Methods to determine the oligomeric structure of proteins

    Purna Bahadur Chetri, Heena Khan and Timir Tripathi

    Pages 49-76

  7. Book chapterAbstract only

    Chapter 6 - Multimodal methods to study protein aggregation and fibrillation

    Maria Georgina Herrera, Marco Giampà, ... Veronica Isabel Dodero

    Pages 77-102

  8. Book chapterAbstract only

    Chapter 7 - Experimental methods to study the thermodynamics of protein–protein interactions

    Santanu Sasidharan, Niharika Nag, ... Prakash Saudagar

    Pages 103-114

  9. Book chapterAbstract only

    Chapter 8 - Experimental methods to study the kinetics of protein–protein interactions

    Abhay Narayan Singh, Kristijan Ramadan and Shalini Singh

    Pages 115-124

  10. Book chapterAbstract only

    Chapter 9 - Computational techniques for studying protein-protein interactions

    Khattab Al-Khafaji and Tugba Taskin-Tok

    Pages 125-135

  11. Book chapterAbstract only

    Chapter 10 - Experimental methods to study protein–nucleic acid interactions

    Roberto Giambruno, Jakob Rupert and Elsa Zacco

    Pages 137-161

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    Chapter 11 - Advanced computational tools for quantitative analysis of protein–nucleic acid interfaces

    Sunandan Mukherjee and Chandran Nithin

    Pages 163-180

  13. Book chapterAbstract only

    Chapter 12 - Experimental techniques to study protein dynamics and conformations

    Akshita Gupta, Anamika Singh, ... Pradeep Sharma

    Pages 181-197

  14. Book chapterAbstract only

    Chapter 13 - Computational techniques to study protein dynamics and conformations

    Anil Mhashal, Agusti Emperador and Laura Orellana

    Pages 199-212

  15. Book chapterAbstract only

    Chapter 14 - Application of circular dichroism spectroscopy in studying protein folding, stability, and interaction

    Md Anzarul Haque, Punit Kaur, ... Md Imtaiyaz Hassan

    Pages 213-224

  16. Book chapterAbstract only

    Chapter 15 - Studying protein-folding dynamics using single-molecule fluorescence methods

    Narattam Mandal, Krishnananda Chattopadhyay and Achinta Sannigrahi

    Pages 225-236

  17. Book chapterAbstract only

    Chapter 16 - Advances in liquid-state NMR spectroscopy to study the structure, function, and dynamics of biomacromolecules

    Priyanka Aggarwal, Pooja Kumari and Neel Sarovar Bhavesh

    Pages 237-266

  18. Book chapterAbstract only

    Chapter 17 - In-cell NMR spectroscopy: A tool to study cellular structure biology

    Vijay Kumar

    Pages 267-276

  19. Book chapterAbstract only

    Chapter 18 - Current trends in membrane protein crystallography

    Koomity V. Nageswar, Mansi Sharma, ... Appu K. Singh

    Pages 277-290

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    Chapter 19 - Advances in sample preparation and data processing for single-particle cryo-electron microscopy

    Anshul Assaiya, Suparna Bhar and Janesh Kumar

    Pages 291-309

  21. Book chapterAbstract only

    Chapter 20 - Advanced mass spectrometry-based methods for protein molecular-structural biologists

    Joanna Bons, Jacob Rose, ... Birgit Schilling

    Pages 311-326

  22. Book chapterAbstract only

    Chapter 21 - Developments, advancements, and contributions of mass spectrometry in omics technologies

    Saravanan Kumar

    Pages 327-356

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    Chapter 22 - Role of structural biology methods in drug discovery

    Fouzia Nasim and Insaf Ahmed Qureshi

    Pages 357-371

  24. Book chapterAbstract only

    Chapter 23 - Prediction, validation, and analysis of protein structures: A beginner’s guide

    Santanu Sasidharan and Prakash Saudagar

    Pages 373-385

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    Chapter 24 - Advances in structure-based virtual screening for drug discovery

    Olujide O. Olubiyi, Suman Samantray and Alexander-Maurice Illig

    Pages 387-404

  26. Book chapterAbstract only

    Chapter 25 - Methods and applications of machine learning in structure-based drug discovery

    Madhumathi Sanjeevi, Prajna N. Hebbar, ... Kanagaraj Sekar

    Pages 405-437

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    Chapter 26 - Molecular dynamics simulations: Principles, methods, and applications in protein conformational dynamics

    Aditya K. Padhi, Matej Janežič and Kam Y.J. Zhang

    Pages 439-454

  28. Book chapterAbstract only

    Chapter 27 - Applications of molecular dynamics simulations in drug discovery

    Xubo Lin

    Pages 455-465

  29. Book chapterAbstract only

    Chapter 28 - Envisaging the conformational space of proteins by coupling machine learning and molecular dynamics

    Murali Aarthy and Sanjeev Kumar Singh

    Pages 467-475

  30. Book chapterAbstract only

    Chapter 29 - Immunoinformatics and reverse vaccinology methods to design peptide-based vaccines

    Vinita Sharma, Satyendra Singh, ... Vijay Kumar Prajapati

    Pages 477-487

  31. Book chapterAbstract only

    Chapter 30 - Computational methods to study intrinsically disordered proteins

    Prateek Kumar, Aparna Bhardwaj, ... Rajanish Giri

    Pages 489-504

  32. Book chapterAbstract only

    Chapter 31 - Experimental methods to study intrinsically disordered proteins

    Niharika Nag, Purna Bahadur Chetri, ... Timir Tripathi

    Pages 505-533

  33. Book chapterAbstract only

    Chapter 32 - Analysis of structure and dynamics of intrinsically disordered regions in proteins using solution NMR methods

    Nikita V. Saibo, Snigdha Maiti, ... Soumya De

    Pages 535-550

  34. Book chapterAbstract only

    Chapter 33 - Methods to study the effect of solution variables on the conformational dynamics of intrinsically disordered proteins

    Hakan Alici, Orkun Hasekioglu, ... Orkid Coskuner-Weber

    Pages 551-563

  35. Book chapterAbstract only

    Chapter 34 - Molecular simulations to study IDP-IDP interactions and their complexes

    Kota Kasahara

    Pages 565-574

  36. Book chapterAbstract only

    Chapter 35 - Exploring large-scale protein function using systematic mutant analysis

    Amrita Arpita Padhy, Subhashree Sahoo, ... Parul Mishra

    Pages 575-588

  37. Book chapterAbstract only

    Chapter 36 - Approaches and methods to study cell signaling: Linguistics of cellular communication

    Siddharth Neog and Vishal Trivedi

    Pages 589-623

  38. Book chapterAbstract only

    Chapter 37 - Methods to study systems biology of signaling networks: A case study of NSCLC

    Nikhil H. Samarth and Shailza Singh

    Pages 625-634

  39. Book chapterAbstract only

    Chapter 38 - Advancements in the analysis of protein post-translational modifications

    Sandip Mukherjee, Ritesh Kumar, ... K. Venuprasad

    Pages 635-640

  40. Book chapterAbstract only

    Chapter 39 - Protein engineering: Methods and applications

    Saurabh Bansal and Bishwajit Kundu

    Pages 641-668

  41. Book chapterAbstract only

    Chapter 40 - Designer 3D-DNA nanodevices: Structures, functions, and cellular applications

    Anjali Rajwar, Payal Vaswani, ... Dhiraj Bhatia

    Pages 669-676

  42. Book chapterNo access

    Index

    Pages 677-685

About the book

Description

Advances in Protein Molecular and Structural Biology Methods offers a complete overview of the latest tools and methods applicable to the study of proteins at the molecular and structural level. The book begins with sections exploring tools to optimize recombinant protein expression and biophysical techniques such as fluorescence spectroscopy, NMR, mass spectrometry, cryo-electron microscopy, and X-ray crystallography. It then moves towards computational approaches, considering structural bioinformatics, molecular dynamics simulations, and deep machine learning technologies. The book also covers methods applied to intrinsically disordered proteins (IDPs)followed by chapters on protein interaction networks, protein function, and protein design and engineering.

It provides researchers with an extensive toolkit of methods and techniques to draw from when conducting their own experimental work, taking them from foundational concepts to practical application.

Advances in Protein Molecular and Structural Biology Methods offers a complete overview of the latest tools and methods applicable to the study of proteins at the molecular and structural level. The book begins with sections exploring tools to optimize recombinant protein expression and biophysical techniques such as fluorescence spectroscopy, NMR, mass spectrometry, cryo-electron microscopy, and X-ray crystallography. It then moves towards computational approaches, considering structural bioinformatics, molecular dynamics simulations, and deep machine learning technologies. The book also covers methods applied to intrinsically disordered proteins (IDPs)followed by chapters on protein interaction networks, protein function, and protein design and engineering.

It provides researchers with an extensive toolkit of methods and techniques to draw from when conducting their own experimental work, taking them from foundational concepts to practical application.

Key Features

  • Presents a thorough overview of the latest and emerging methods and technologies for protein study
  • Explores biophysical techniques, including nuclear magnetic resonance, X-ray crystallography, and cryo-electron microscopy
  • Includes computational and machine learning methods
  • Features a section dedicated to tools and techniques specific to studying intrinsically disordered proteins
  • Presents a thorough overview of the latest and emerging methods and technologies for protein study
  • Explores biophysical techniques, including nuclear magnetic resonance, X-ray crystallography, and cryo-electron microscopy
  • Includes computational and machine learning methods
  • Features a section dedicated to tools and techniques specific to studying intrinsically disordered proteins

Details

ISBN

978-0-323-90264-9

Language

English

Published

2022

Copyright

Copyright © 2022 Elsevier Inc. All rights reserved.

Imprint

Academic Press

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Editors

Timir Tripathi

Senior Assistant Professor, Department of Biochemistry, North-Eastern Hill University, Shillong, India

Vikash Kumar Dubey

Professor, School of Biochemical Engineering, Indian Institute of Technology BHU, Varanasi, India