Nanopore Technology: Methods and Protocols

ISBN-13: 9781071608050 / Angielski / Twarda / 2020 / 231 str.

Monifa A. V. Fahie

Spis treści

Part I: Design and Preparation of Biological Based Nanopores

 

1. Preparation of Fragaceatoxin C (FraC) Nanopores

            Natalie Lisa Mutter, Gang Huang, Nieck van der Heide, Florian Leonardus Rudolfus Lucas, Nicole Stéphanie Galenkamp, Giovanni Maglia, and Carsten Wloka

 

2. Preparation of Cytolysin A (ClyA) Nanopores

            Nicole Stéphanie Galenkamp, Veerle Van Meervelt, Natalie Lisa Mutter, Nieck van der Heide, Carsten Wloka, and Giovanni Maglia

 

3. Building Synthetic Transmembrane Peptide Pores

            Kozhinjampara R. Mahendran

 

4. Design and Assembly of Membrane-Spanning DNA Nanopores

            Kerstin Göpfrich and Ulrich F. Keyser

 

Part II: Single Molecule Detection and Analysis of Protein Analytes

 

5. Determining the Orientation of Porins in Planar Lipid Bilayers

            Sandra A Ionescu, Sejeong Lee, and Hagan Bayley

 

6. Revelation of Function and Inhibition of Wza through Single Channel Studies

            Lingbing Kong

 

7. Protein Analyte Sensing with an Outer Membrane Protein G (OmpG) Nanopore

            Monifa A.V. Fahie, Bib Yang, Christina M. Chisholm, and Min Chen

 

8. Nanopore Enzymology to Study Protein Kinases and their Inhibition by Small Molecules

            Leon Harrington, Leila T. Alexander, Stefan Knapp, and Hagan Bayley

 

9. A Selective Activity-Based Approach for Analysis of Enzymes with an OmpG Nanopore

            Monifa A.V. Fahie, Bach Pham, Fanjun Li, and Min Chen

 

10. Oligonucleotide-Directed Protein Threading through a Rigid Nanopore

            Garbiñe Celaya and David Rodriguez Larrea

 

11. Unfolding and Translocation of Proteins through an Alpha-Hemolysin Nanopore by ClpXP

            Jeff Nivala, Logan Mulroney, Qing Luan, Robin Abu-Shumays, and Mark Akeson

 

Part III: Computational Analysis of Nanopore Behavior

 

12. Simulation of pH-Dependent, Loop-Based Membrane Protein Gating Using Pretzel

            Alan Perez-Rathke, Monifa A.V. Fahie, Christina M. Chisholm, Min Chen, and Jie Liang

 

13. Free Energy Minimization for Vesicle Translocation through a Narrow Pore

            Hamid R. Shojaei, Ahad Khaleghi Ardabili, and Murrugappan Muthukumar

 

Part IV: Droplet Interface Bilayer System

 

14. Single Ion-Channel Analysis in Droplet Interface Bilayer

            Arash Manafirad

 

15. Continuous and Rapid Solution Exchange in a Lipid Bilayer Perfusion System Based on Droplet-Interface Bilayer

            En-Hsin Lee

 

16. Protein Transport Studied by a Model Asymmetric Membrane Army Arranged in a Dimple Chip

            Xin Li and Min Chen

Blurb

This detailed collection explores techniques involved in the main strategies of nanopore sensing, such as translocation, analyte trapping, and interactions with external binding sites. Opening with a section on nanopore design and nanopore production, the book continues with parts devoted to various biological nanopores, nanopore engineering, and their uses in single molecule sensing, computational methods to study intrinsic nanopore behavior, characterizing the specific translocation activity of a vesicle particle through a nanopore, as well as the use of the technique droplet interface bilayer (DIB) in nanopore and membrane biophysical studies. Written for the highly successful Methods in Molecular Biology series, 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. 

Authoritative and practical, Nanopore Technology: Methods and Protocols, with its focus on nanopore technology and biomolecule characterization, will hold the interest of the biophysicists, biochemists, bioengineers, and molecular biologists who are working toward further understanding this key field of research.