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Bacterial Multidrug Exporters

Methods and Protocols

  • Book
  • © 2018

Overview

Editors:
  1. Akihito Yamaguchi

    1. Institute of Scientific and Industrial Research, Osaka University, Ibaraki, Japan

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    You can also search for this editor in PubMed   Google Scholar

  2. Kunihiko Nishino

    1. Graduate School of Pharmaceutical Sciences, Osaka University, Suita, Japan

    View editor publications

    You can also search for this editor in PubMed   Google Scholar

  • Includes cutting-edge methods and protocols for the study of bacterial multidrug exporters
  • Provides step-by-step detail essential for reproducible results
  • Contains key notes and implementation advice from the experts
  • Includes supplementary material: sn.pub/extras

Part of the book series: Methods in Molecular Biology (MIMB, volume 1700)

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Table of contents (19 protocols)

  1. Front Matter

    Pages i-xii
    Download chapter PDF

  2. Structural Analysis of Bacterial Multidrug Exporters

    1. Front Matter

      Pages 1-1
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    2. High-Resolution Crystallographic Analysis of AcrB Using Designed Ankyrin Repeat Proteins (DARPins)

      • Heng Keat Tam, Viveka Nand Malviya, Klaas M. Pos
      Pages 3-24

    3. Crystallographic Analysis of Drug and Inhibitor-Binding Structure of RND-Type Multidrug Exporter AcrB in Physiologically Relevant Asymmetric Crystals

      • Ryosuke Nakashima, Keisuke Sakurai, Akihito Yamaguchi
      Pages 25-36

    4. Crystallographic Analysis of MATE-Type Multidrug Exporter with Its Inhibitors

      • Tsukasa Kusakizako, Yoshiki Tanaka, Christopher J. Hipolito, Hiroaki Suga, Osamu Nureki
      Pages 37-57

    5. Crystallographic Analysis of the CusBA Heavy-Metal Efflux Complex of Escherichia coli

      • Jared A. Delmar, Edward W. Yu
      Pages 59-70

    6. Purification of AcrAB-TolC Multidrug Efflux Pump for Cryo-EM Analysis

      • Dijun Du, Zhao Wang, Wah Chiu, Ben F. Luisi
      Pages 71-81

    7. NMR Spectroscopy Approach to Study the Structure, Orientation, and Mechanism of the Multidrug Exporter EmrE

      • Maureen Leninger, Nathaniel J. Traaseth
      Pages 83-96

    8. Generation of Conformation-Specific Antibody Fragments for Crystallization of the Multidrug Resistance Transporter MdfA

      • Frank Jaenecke, Yoshiko Nakada-Nakura, Kumar Nagarathinam, Satoshi Ogasawara, Kehong Liu, Yunhon Hotta et al.
      Pages 97-109

  3. Biochemical and Bioengineering Analysis of Bacterial Multidrug Exporters

    1. Front Matter

      Pages 111-111
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    2. Biochemical Reconstitution and Characterization of Multicomponent Drug Efflux Transporters

      • Martin Picard, Elena B. Tikhonova, Isabelle Broutin, Shuo Lu, Alice Verchère, Helen I. Zgurskaya
      Pages 113-145

    3. Covalently Linked Trimers of RND (Resistance-Nodulation-Division) Efflux Transporters to Study Their Mechanism of Action: Escherichia coli AcrB Multidrug Exporter as an Example

      • Hiroshi Nikaido
      Pages 147-165

    4. Determining Ligand Path Through a Major Drug Transporter, AcrB, in Escherichia coli

      • Fasahath Husain, Hiroshi Nikaido
      Pages 167-175

  4. Computational Analysis of Bacterial Multidrug Exporters

    1. Front Matter

      Pages 177-177
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    2. Molecular Modeling of Multidrug Properties of Resistance Nodulation Division (RND) Transporters

      • Pierpaolo Cacciotto, Venkata K. Ramaswamy, Giuliano Malloci, Paolo Ruggerone, Attilio V. Vargiu
      Pages 179-219

    3. A Transcriptomic Approach to Identify Novel Drug Efflux Pumps in Bacteria

      • Liping Li, Sasha G. Tetu, Ian T. Paulsen, Karl A. Hassan
      Pages 221-235

  5. Biomedical Approach for Bacterial Multidrug Exporters

    1. Front Matter

      Pages 237-237
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    2. Regulation of the Expression of Bacterial Multidrug Exporters by Two-Component Signal Transduction Systems

      • Kunihiko Nishino
      Pages 239-251

    3. Study of the Expression of Bacterial Multidrug Efflux Pumps in Anaerobic Conditions

      • Jingjing Sun, Ziqing Deng, Danny Ka Chun Fung, Aixin Yan
      Pages 253-268

    4. Identification of a Staphylococcus aureus Efflux Pump Regulator Using a DNA–Protein Affinity Technique

      • Que Chi Truong-Bolduc, David C. Hooper
      Pages 269-291
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Keywords

About this book

This detailed volume utilizes our current understanding of the structural basis of multidrug recognition and multidrug efflux mechanisms to provide protocols involving these vital intrinsic membrane proteins widely distributed in bacteria. Beginning with protocols for the structural analysis of bacterial multidrug exporters, the book continues with sections on biochemical and bioengineering analysis, computational analysis, biomedical approaches, as well as advanced technologies expected to be applied to multidrug efflux transport studies. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective chapters, 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, Bacterial Multidrug Exporters: Methods and Protocols serves as an ideal guide to

this fastmoving field of study.

Editors and Affiliations

  • Institute of Scientific and Industrial Research, Osaka University, Ibaraki, Japan

    Akihito Yamaguchi

  • Graduate School of Pharmaceutical Sciences, Osaka University, Suita, Japan

    Kunihiko Nishino

Bibliographic Information

  • Book Title: Bacterial Multidrug Exporters

  • Book Subtitle: Methods and Protocols

  • Editors: Akihito Yamaguchi, Kunihiko Nishino

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-4939-7454-2

  • Publisher: Humana New York, NY

  • eBook Packages: Springer Protocols

  • Copyright Information: Springer Science+Business Media, LLC 2018

  • Hardcover ISBN: 978-1-4939-7452-8Published: 25 November 2017

  • Softcover ISBN: 978-1-4939-8490-9Published: 30 August 2018

  • eBook ISBN: 978-1-4939-7454-2Published: 23 November 2017

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: XII, 355

  • Number of Illustrations: 38 b/w illustrations, 53 illustrations in colour

  • Topics: Immunology

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