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Title: Reviving Antibiotics: Efflux Pump Inhibitors That Interact with AcrA, a Membrane Fusion Protein of the AcrAB-TolC Multidrug Efflux Pump

Abstract

Antibiotic resistance is a major threat to human welfare. Inhibitors of multidrug efflux pumps (EPIs) are promising alternative therapeutics that could revive activities of antibiotics and reduce bacterial virulence. Identification of new druggable sites for inhibition is critical for developing effective EPIs, especially in light of constantly emerging resistance. We describe new EPIs that interact with and possibly inhibit the function of periplasmic membrane fusion proteins, critical components of efflux pumps that are responsible for the activation of the transporter and the recruitment of the outer-membrane channel. The discovered EPIs bind to AcrA, a component of the prototypical AcrAB-TolC pump, change its structure in vivo, inhibit efflux of fluorescent probes and potentiate the activities of antibiotics in Escherichia coli cells. These findings expand the chemical and mechanistic diversity of EPIs, suggest the mechanism for regulation of the efflux pump assembly and activity, and provide a promising path for reviving the activities of antibiotics in resistant bacteria.

Authors:
 [1];  [2];  [3];  [1];  [4];  [1];  [3];  [1];  [2];  [2];  [1]
  1. Univ. of Oklahoma, Norman, OK (United States). Dept. of Chemistry and Biochemistry
  2. Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States). Center for Molecular Biophysics; Univ. of Tennessee, Knoxville, TN (United States). Dept. of Biochemistry and Cellular and Molecular Biology
  3. Saint Louis Univ. School of Medicine, MS (United States). Dept. of Pharmacological and Physiological Science
  4. Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States). Center for Molecular Biophysics
Publication Date:
Research Org.:
Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States). Oak Ridge Leadership Computing Facility (OLCF)
Sponsoring Org.:
USDOE Office of Science (SC)
OSTI Identifier:
1341559
Grant/Contract Number:  
AC05-00OR22725
Resource Type:
Accepted Manuscript
Journal Name:
ACS Infectious Diseases
Additional Journal Information:
Journal Volume: 3; Journal Issue: 1; Journal ID: ISSN 2373-8227
Publisher:
American Chemical Society (ACS)
Country of Publication:
United States
Language:
English
Subject:
60 APPLIED LIFE SCIENCES; Titan

Citation Formats

Abdali, Narges, Parks, Jerry M., Haynes, Keith M., Chaney, Julie L., Green, Adam T., Wolloscheck, David, Walker, John K., Rybenkov, Valentin V., Baudry, Jerome, Smith, Jeremy C., and Zgurskaya, Helen I. Reviving Antibiotics: Efflux Pump Inhibitors That Interact with AcrA, a Membrane Fusion Protein of the AcrAB-TolC Multidrug Efflux Pump. United States: N. p., 2016. Web. doi:10.1021/acsinfecdis.6b00167.
Abdali, Narges, Parks, Jerry M., Haynes, Keith M., Chaney, Julie L., Green, Adam T., Wolloscheck, David, Walker, John K., Rybenkov, Valentin V., Baudry, Jerome, Smith, Jeremy C., & Zgurskaya, Helen I. Reviving Antibiotics: Efflux Pump Inhibitors That Interact with AcrA, a Membrane Fusion Protein of the AcrAB-TolC Multidrug Efflux Pump. United States. https://doi.org/10.1021/acsinfecdis.6b00167
Abdali, Narges, Parks, Jerry M., Haynes, Keith M., Chaney, Julie L., Green, Adam T., Wolloscheck, David, Walker, John K., Rybenkov, Valentin V., Baudry, Jerome, Smith, Jeremy C., and Zgurskaya, Helen I. Fri . "Reviving Antibiotics: Efflux Pump Inhibitors That Interact with AcrA, a Membrane Fusion Protein of the AcrAB-TolC Multidrug Efflux Pump". United States. https://doi.org/10.1021/acsinfecdis.6b00167. https://www.osti.gov/servlets/purl/1341559.
@article{osti_1341559,
title = {Reviving Antibiotics: Efflux Pump Inhibitors That Interact with AcrA, a Membrane Fusion Protein of the AcrAB-TolC Multidrug Efflux Pump},
author = {Abdali, Narges and Parks, Jerry M. and Haynes, Keith M. and Chaney, Julie L. and Green, Adam T. and Wolloscheck, David and Walker, John K. and Rybenkov, Valentin V. and Baudry, Jerome and Smith, Jeremy C. and Zgurskaya, Helen I.},
abstractNote = {Antibiotic resistance is a major threat to human welfare. Inhibitors of multidrug efflux pumps (EPIs) are promising alternative therapeutics that could revive activities of antibiotics and reduce bacterial virulence. Identification of new druggable sites for inhibition is critical for developing effective EPIs, especially in light of constantly emerging resistance. We describe new EPIs that interact with and possibly inhibit the function of periplasmic membrane fusion proteins, critical components of efflux pumps that are responsible for the activation of the transporter and the recruitment of the outer-membrane channel. The discovered EPIs bind to AcrA, a component of the prototypical AcrAB-TolC pump, change its structure in vivo, inhibit efflux of fluorescent probes and potentiate the activities of antibiotics in Escherichia coli cells. These findings expand the chemical and mechanistic diversity of EPIs, suggest the mechanism for regulation of the efflux pump assembly and activity, and provide a promising path for reviving the activities of antibiotics in resistant bacteria.},
doi = {10.1021/acsinfecdis.6b00167},
journal = {ACS Infectious Diseases},
number = 1,
volume = 3,
place = {United States},
year = {Fri Oct 21 00:00:00 EDT 2016},
month = {Fri Oct 21 00:00:00 EDT 2016}
}

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Works referenced in this record:

Structure of the AcrAB–TolC multidrug efflux pump
journal, April 2014

  • Du, Dijun; Wang, Zhao; James, Nathan R.
  • Nature, Vol. 509, Issue 7501
  • DOI: 10.1038/nature13205

Genes acrA and acrB encode a stress-induced efflux system of Escherichia coli
journal, April 1995


Evidence that TolC is required for functioning of the Mar/AcrAB efflux pump of Escherichia coli.
journal, January 1996


Recent advances toward a molecular mechanism of efflux pump inhibition
journal, May 2015


Practical applications and feasibility of efflux pump inhibitors in the clinic—A vision for applied use
journal, March 2006


Identification and Characterization of Inhibitors of Multidrug Resistance Efflux Pumps in Pseudomonas aeruginosa: Novel Agents for Combination Therapy
journal, January 2001


Structural basis for the inhibition of bacterial multidrug exporters
journal, June 2013

  • Nakashima, Ryosuke; Sakurai, Keisuke; Yamasaki, Seiji
  • Nature, Vol. 500, Issue 7460, p. 102-106
  • DOI: 10.1038/nature12300

Sequential Mechanism of Assembly of Multidrug Efflux Pump AcrAB-TolC
journal, April 2011


Evaluation of Multidrug Efflux Pump Inhibitors by a New Method Using Microfluidic Channels
journal, April 2011


Aminoacyl β-naphthylamides as substrates and modulators of AcrB multidrug efflux pump
journal, January 2016

  • Kinana, Alfred D.; Vargiu, Attilio V.; May, Thithiwat
  • Proceedings of the National Academy of Sciences, Vol. 113, Issue 5
  • DOI: 10.1073/pnas.1525143113

Mechanism of coupling drug transport reactions located in two different membranes
journal, February 2015


Kinetic control of TolC recruitment by multidrug efflux complexes
journal, September 2009

  • Tikhonova, E. B.; Dastidar, V.; Rybenkov, V. V.
  • Proceedings of the National Academy of Sciences, Vol. 106, Issue 38
  • DOI: 10.1073/pnas.0906601106

Conformational Flexibility in the Multidrug Efflux System Protein AcrA
journal, March 2006


The assembled structure of a complete tripartite bacterial multidrug efflux pump
journal, April 2009

  • Symmons, Martyn F.; Bokma, Evert; Koronakis, Eva
  • Proceedings of the National Academy of Sciences, Vol. 106, Issue 17
  • DOI: 10.1073/pnas.0900693106

Funnel-like Hexameric Assembly of the Periplasmic Adapter Protein in the Tripartite Multidrug Efflux Pump in Gram-negative Bacteria
journal, May 2011

  • Xu, Yongbin; Lee, Minho; Moeller, Arne
  • Journal of Biological Chemistry, Vol. 286, Issue 20
  • DOI: 10.1074/jbc.M111.238535

Structure-function analysis of the ATP-driven glycolipid efflux pump DevBCA reveals complex organization with TolC/HgdD
journal, December 2013


Metal-induced conformational changes in ZneB suggest an active role of membrane fusion proteins in efflux resistance systems
journal, June 2010

  • De Angelis, F.; Lee, J. K.; O'Connell, J. D.
  • Proceedings of the National Academy of Sciences, Vol. 107, Issue 24
  • DOI: 10.1073/pnas.1003908107

Structure of the periplasmic component of a bacterial drug efflux pump
journal, June 2004

  • Higgins, M. K.; Bokma, E.; Koronakis, E.
  • Proceedings of the National Academy of Sciences, Vol. 101, Issue 27
  • DOI: 10.1073/pnas.0400375101

Characterization of a Novel Pyranopyridine Inhibitor of the AcrAB Efflux Pump of Escherichia coli
journal, November 2013

  • Opperman, Timothy J.; Kwasny, Steven M.; Kim, Hong-Suk
  • Antimicrobial Agents and Chemotherapy, Vol. 58, Issue 2
  • DOI: 10.1128/AAC.01866-13

Breaking the permeability barrier of Escherichia coli by controlled hyperporination of the outer membrane.
journal, October 2016

  • Krishnamoorthy, Ganesh; Wolloscheck, David; Weeks, Jon W.
  • Antimicrobial Agents and Chemotherapy
  • DOI: 10.1128/AAC.01882-16

Flexibility in a Drug Transport Accessory Protein: Molecular Dynamics Simulations of MexA
journal, July 2006


The C-Terminal Domain of AcrA Is Essential for the Assembly and Function of the Multidrug Efflux Pump AcrAB-TolC
journal, May 2009

  • Ge, Qiang; Yamada, Yoichi; Zgurskaya, Helen
  • Journal of Bacteriology, Vol. 191, Issue 13
  • DOI: 10.1128/JB.00204-09

Multi-Conformer Ensemble Docking to Difficult Protein Targets
journal, August 2014

  • Ellingson, Sally R.; Miao, Yinglong; Baudry, Jerome
  • The Journal of Physical Chemistry B, Vol. 119, Issue 3
  • DOI: 10.1021/jp506511p

VinaMPI: Facilitating multiple receptor high-throughput virtual docking on high-performance computers: Software News And Updates
journal, June 2013

  • Ellingson, Sally R.; Smith, Jeremy C.; Baudry, Jerome
  • Journal of Computational Chemistry, Vol. 34, Issue 25
  • DOI: 10.1002/jcc.23367

Clorobiocin Biosynthesis in Streptomyces
journal, March 2003


Biological Activities of Novel Gyrase Inhibitors of the Aminocoumarin Class
journal, June 2008

  • Anderle, Christine; Stieger, Martin; Burrell, Matthew
  • Antimicrobial Agents and Chemotherapy, Vol. 52, Issue 6
  • DOI: 10.1128/AAC.01235-07

Crystal and molecular structure of the antimalarial agent enpiroline
journal, July 1989

  • Karle, J. M.; Karle, I. L.
  • Antimicrobial Agents and Chemotherapy, Vol. 33, Issue 7
  • DOI: 10.1128/AAC.33.7.1081

Molecular basis for inhibition of AcrB multidrug efflux pump by novel and powerful pyranopyridine derivatives
journal, March 2016

  • Sjuts, Hanno; Vargiu, Attilio V.; Kwasny, Steven M.
  • Proceedings of the National Academy of Sciences, Vol. 113, Issue 13
  • DOI: 10.1073/pnas.1602472113

A 96-well plate fluorescence assay for assessment of cellular permeability and active efflux in Salmonella enterica serovar Typhimurium and Escherichia coli
journal, May 2010

  • Coldham, N. G.; Webber, M.; Woodward, M. J.
  • Journal of Antimicrobial Chemotherapy, Vol. 65, Issue 8
  • DOI: 10.1093/jac/dkq169

Bacterial efflux pump inhibitors from natural sources
journal, December 2006

  • Stavri, Michael; Piddock, Laura J. V.; Gibbons, Simon
  • Journal of Antimicrobial Chemotherapy, Vol. 59, Issue 6
  • DOI: 10.1093/jac/dkl460

AcrA suppressor alterations reverse the drug hypersensitivity phenotype of a TolC mutant by inducing TolC aperture opening
journal, March 2010


Fitting Periplasmic Membrane Fusion Proteins to Inner Membrane Transporters: Mutations That Enable Escherichia coli AcrA To Function with Pseudomonas aeruginosa MexB
journal, November 2007

  • Krishnamoorthy, G.; Tikhonova, E. B.; Zgurskaya, H. I.
  • Journal of Bacteriology, Vol. 190, Issue 2
  • DOI: 10.1128/JB.01276-07

AcrA, AcrB, and TolC of Escherichia coli Form a Stable Intermembrane Multidrug Efflux Complex
journal, July 2004

  • Tikhonova, Elena B.; Zgurskaya, Helen I.
  • Journal of Biological Chemistry, Vol. 279, Issue 31
  • DOI: 10.1074/jbc.M402230200

AcrA is a highly asymmetric protein capable of spanning the periplasm 1 1Edited by I. B. Holland
journal, January 1999

  • Zgurskaya, Helen I.; Nikaido, Hiroshi
  • Journal of Molecular Biology, Vol. 285, Issue 1
  • DOI: 10.1006/jmbi.1998.2313

Chimeric Analysis of the Multicomponent Multidrug Efflux Transporters from Gram-Negative Bacteria
journal, December 2002


Works referencing / citing this record:

Inhibiting Bacterial Drug Efflux Pumps via Phyto-Therapeutics to Combat Threatening Antimicrobial Resistance
journal, December 2018


Drug combinations: a strategy to extend the life of antibiotics in the 21st century
journal, January 2019


Involvement of multiple influx and efflux transporters in the accumulation of cationic fluorescent dyes by Escherichia coli
journal, August 2019


Permeability barriers of Gram‐negative pathogens
journal, June 2019

  • Zgurskaya, Helen I.; Rybenkov, Valentin V.
  • Annals of the New York Academy of Sciences, Vol. 1459, Issue 1
  • DOI: 10.1111/nyas.14134

2038 – When microbes rule the Earth
journal, October 2018


Inhibiting Bacterial Drug Efflux Pumps via Phyto-Therapeutics to Combat Threatening Antimicrobial Resistance
journal, December 2018


Molecules that Inhibit Bacterial Resistance Enzymes
journal, December 2018