DOE PAGES title logo U.S. Department of Energy
Office of Scientific and Technical Information

Title: Structural basis of transcriptional regulation by the HigA antitoxin

Abstract

Bacterial toxin–antitoxin systems are important factors implicated in growth inhibition and plasmid maintenance. Type II toxin–antitoxin pairs are regulated at the transcriptional level by the antitoxin itself. In this work, we examined how the HigA antitoxin regulates the expression of the Proteus vulgaris higBA toxin–antitoxin operon from the Rts1 plasmid. The HigBA complex adopts a unique architecture suggesting differences in its regulation as compared to classical type II toxin–antitoxin systems. We find that the C-terminus of the HigA antitoxin is required for dimerization and transcriptional repression. Further, the HigA structure reveals that the C terminus is ordered and does not transition between disorder-to-order states upon toxin binding. HigA residue Arg40 recognizes a TpG dinucleotide in higO2, an evolutionary conserved mode of recognition among prokaryotic and eukaryotic transcription factors. Comparison of the HigBA and HigA-higO2 structures reveals the distance between helix-turn-helix motifs of each HigA monomer increases by ~4 Å in order to bind to higO2. Consistent with these data, HigBA binding to each operator is twofold less tight than HigA alone. Together, these data show the HigB toxin does not act as a co-repressor suggesting potential novel regulation in this toxin–antitoxin system.

Authors:
 [1];  [1];  [1];  [1];  [1];  [1];  [2];  [1]
  1. Emory Univ. School of Medicine, Atlanta,GA (United States)
  2. Children’s Healthcare of Atlanta, GA (United States); Emory Univ. School of Medicine, Atlanta, GA (United States)
Publication Date:
Research Org.:
Argonne National Laboratory (ANL), Argonne, IL (United States). Advanced Photon Source (APS)
Sponsoring Org.:
National Science Foundation (NSF); National Institutes of Health (NIH); Burroughs Wellcome Fund; National Institute of General Medical Sciences (NIGMS); Office of Research Infrastructure Programs (ORIP)
OSTI Identifier:
1529630
Grant/Contract Number:  
MCB 0953714; 5T32GM8367; GM108351; P41 GM103403; S10 RR029205; AC02-06CH11357
Resource Type:
Accepted Manuscript
Journal Name:
Molecular Microbiology
Additional Journal Information:
Journal Volume: 111; Journal Issue: 6; Journal ID: ISSN 0950-382X
Publisher:
Wiley
Country of Publication:
United States
Language:
ENGLISH
Subject:
59 BASIC BIOLOGICAL SCIENCES

Citation Formats

Schureck, Marc A., Meisner, Jeffrey, Hoffer, Eric D., Wang, Dongxue, Onuoha, Nina, Ei Cho, Shein, Lollar III, Pete, and Dunham, Christine M. Structural basis of transcriptional regulation by the HigA antitoxin. United States: N. p., 2019. Web. doi:10.1111/mmi.14229.
Schureck, Marc A., Meisner, Jeffrey, Hoffer, Eric D., Wang, Dongxue, Onuoha, Nina, Ei Cho, Shein, Lollar III, Pete, & Dunham, Christine M. Structural basis of transcriptional regulation by the HigA antitoxin. United States. https://doi.org/10.1111/mmi.14229
Schureck, Marc A., Meisner, Jeffrey, Hoffer, Eric D., Wang, Dongxue, Onuoha, Nina, Ei Cho, Shein, Lollar III, Pete, and Dunham, Christine M. Thu . "Structural basis of transcriptional regulation by the HigA antitoxin". United States. https://doi.org/10.1111/mmi.14229. https://www.osti.gov/servlets/purl/1529630.
@article{osti_1529630,
title = {Structural basis of transcriptional regulation by the HigA antitoxin},
author = {Schureck, Marc A. and Meisner, Jeffrey and Hoffer, Eric D. and Wang, Dongxue and Onuoha, Nina and Ei Cho, Shein and Lollar III, Pete and Dunham, Christine M.},
abstractNote = {Bacterial toxin–antitoxin systems are important factors implicated in growth inhibition and plasmid maintenance. Type II toxin–antitoxin pairs are regulated at the transcriptional level by the antitoxin itself. In this work, we examined how the HigA antitoxin regulates the expression of the Proteus vulgaris higBA toxin–antitoxin operon from the Rts1 plasmid. The HigBA complex adopts a unique architecture suggesting differences in its regulation as compared to classical type II toxin–antitoxin systems. We find that the C-terminus of the HigA antitoxin is required for dimerization and transcriptional repression. Further, the HigA structure reveals that the C terminus is ordered and does not transition between disorder-to-order states upon toxin binding. HigA residue Arg40 recognizes a TpG dinucleotide in higO2, an evolutionary conserved mode of recognition among prokaryotic and eukaryotic transcription factors. Comparison of the HigBA and HigA-higO2 structures reveals the distance between helix-turn-helix motifs of each HigA monomer increases by ~4 Å in order to bind to higO2. Consistent with these data, HigBA binding to each operator is twofold less tight than HigA alone. Together, these data show the HigB toxin does not act as a co-repressor suggesting potential novel regulation in this toxin–antitoxin system.},
doi = {10.1111/mmi.14229},
journal = {Molecular Microbiology},
number = 6,
volume = 111,
place = {United States},
year = {Thu Feb 21 00:00:00 EST 2019},
month = {Thu Feb 21 00:00:00 EST 2019}
}

Journal Article:
Free Publicly Available Full Text
Publisher's Version of Record

Citation Metrics:
Cited by: 17 works
Citation information provided by
Web of Science

Save / Share:

Works referenced in this record:

Allostery and Intrinsic Disorder Mediate Transcription Regulation by Conditional Cooperativity
journal, July 2010


Prokaryotic toxin–antitoxin stress response loci
journal, May 2005

  • Gerdes, Kenn; Christensen, Susanne K.; Løbner-Olesen, Anders
  • Nature Reviews Microbiology, Vol. 3, Issue 5
  • DOI: 10.1038/nrmicro1147

Mechanism of endonuclease cleavage by the HigB toxin
journal, July 2016

  • Schureck, Marc A.; Repack, Adrienne; Miles, Stacey J.
  • Nucleic Acids Research, Vol. 44, Issue 16
  • DOI: 10.1093/nar/gkw598

Rejuvenation of CcdB-Poisoned Gyrase by an Intrinsically Disordered Protein Domain
journal, July 2009


Dali server: conservation mapping in 3D
journal, May 2010

  • Holm, Liisa; Rosenstr�m, P�ivi
  • Nucleic Acids Research, Vol. 38, Issue suppl_2
  • DOI: 10.1093/nar/gkq366

Bacterial Toxin HigB Associates with Ribosomes and Mediates Translation-dependent mRNA Cleavage at A-rich Sites
journal, May 2009

  • Hurley, Jennifer M.; Woychik, Nancy A.
  • Journal of Biological Chemistry, Vol. 284, Issue 28
  • DOI: 10.1074/jbc.M109.008763

Three new RelE-homologous mRNA interferases of Escherichia coli differentially induced by environmental stresses
journal, January 2010


Doc of Prophage P1 Is Inhibited by Its Antitoxin Partner Phd through Fold Complementation
journal, August 2008

  • Garcia-Pino, Abel; Christensen-Dalsgaard, Mikkel; Wyns, Lode
  • Journal of Biological Chemistry, Vol. 283, Issue 45
  • DOI: 10.1074/jbc.M805654200

Lon-dependent proteolysis of CcdA is the key control for activation of CcdB in plasmid-free segregant bacteria
journal, March 1994


Corepression of the P1 Addiction Operon by Phd and Doc
journal, December 1998


Quantifying Absolute Protein Synthesis Rates Reveals Principles Underlying Allocation of Cellular Resources
journal, April 2014


The ratio between CcdA and CcdB modulates the transcriptional repression of the ccd poison-antidote system: Autoregulation of the ccd operon
journal, July 2001


A New Plasmid-Encoded Proteic Killer Gene System: Cloning, Sequencing, and AnalyzinghigLocus of Plasmid Rts1
journal, March 1996

  • Tian, Qing Bao; Ohnishi, Makoto; Tabuchi, Akira
  • Biochemical and Biophysical Research Communications, Vol. 220, Issue 2
  • DOI: 10.1006/bbrc.1996.0396

XDS
journal, January 2010

  • Kabsch, Wolfgang
  • Acta Crystallographica Section D Biological Crystallography, Vol. 66, Issue 2
  • DOI: 10.1107/S0907444909047337

Growth control switch by a DNA-damage-inducible toxin–antitoxin system in Caulobacter crescentus
journal, February 2016


Crystal Structure of the MazE/MazF Complex
journal, April 2003


Tight regulation, modulation, and high-level expression by vectors containing the arabinose PBAD promoter.
journal, July 1995


Toxin-antitoxin systems in bacterial growth arrest and persistence
journal, March 2016


Recognition of 5′-YpG-3′ Sequences by Coupled Stacking/Hydrogen Bonding Interactions with Amino Acid Residues
journal, January 2004

  • Lamoureux, Jason S.; Maynes, Jason T.; Mark Glover, J. N.
  • Journal of Molecular Biology, Vol. 335, Issue 2
  • DOI: 10.1016/j.jmb.2003.10.071

Toxin-antitoxin regulation: bimodal interaction of YefM-YoeB with paired DNA palindromes exerts transcriptional autorepression
journal, December 2006

  • Kedzierska, B.; Lian, L. -Y.; Hayes, F.
  • Nucleic Acids Research, Vol. 35, Issue 1
  • DOI: 10.1093/nar/gkl1028

CURVES+ web server for analyzing and visualizing the helical, backbone and groove parameters of nucleic acid structures
journal, May 2011

  • Blanchet, C.; Pasi, M.; Zakrzewska, K.
  • Nucleic Acids Research, Vol. 39, Issue suppl
  • DOI: 10.1093/nar/gkr316

The Chromosomal Toxin Gene yafQ Is a Determinant of Multidrug Tolerance for Escherichia coli Growing in a Biofilm
journal, March 2009

  • Harrison, J. J.; Wade, W. D.; Akierman, S.
  • Antimicrobial Agents and Chemotherapy, Vol. 53, Issue 6
  • DOI: 10.1128/AAC.00043-09

The Escherichia coli Toxin MqsR Destabilizes the Transcriptional Repression Complex Formed between the Antitoxin MqsA and the mqsRA Operon Promoter
journal, November 2012

  • Brown, Breann L.; Lord, Dana M.; Grigoriu, Simina
  • Journal of Biological Chemistry, Vol. 288, Issue 2
  • DOI: 10.1074/jbc.M112.421008

Features and development of Coot
journal, March 2010

  • Emsley, P.; Lohkamp, B.; Scott, W. G.
  • Acta Crystallographica Section D Biological Crystallography, Vol. 66, Issue 4
  • DOI: 10.1107/S0907444910007493

mRNA bound to the 30S subunit is a HigB toxin substrate
journal, June 2016


P22 c2 Repressor−Operator Complex:  Mechanisms of Direct and Indirect Readout
journal, February 2008

  • Watkins, Derrick; Hsiao, Chiaolong; Woods, Kristen Kruger
  • Biochemistry, Vol. 47, Issue 8
  • DOI: 10.1021/bi701826f

PHENIX: a comprehensive Python-based system for macromolecular structure solution
journal, January 2010

  • Adams, Paul D.; Afonine, Pavel V.; Bunkóczi, Gábor
  • Acta Crystallographica Section D Biological Crystallography, Vol. 66, Issue 2, p. 213-221
  • DOI: 10.1107/S0907444909052925

Structure of the Proteus vulgaris HigB-(HigA) 2 -HigB Toxin-Antitoxin Complex
journal, November 2013

  • Schureck, Marc A.; Maehigashi, Tatsuya; Miles, Stacey J.
  • Journal of Biological Chemistry, Vol. 289, Issue 2
  • DOI: 10.1074/jbc.M113.512095

Messenger RNA interferase RelE controls relBE transcription by conditional cooperativity
journal, August 2008


The Phage 434 OR2/R1-69 Complex at 2·5 Å Resolution
journal, August 1993

  • Shimon, Linda J. W.; Harrison, Stephen C.
  • Journal of Molecular Biology, Vol. 232, Issue 3
  • DOI: 10.1006/jmbi.1993.1434

Conformational Change in the Catalytic Site of the Ribonuclease YoeB Toxin by YefM Antitoxin
journal, August 2005


Molecular Mechanisms of HipA-Mediated Multidrug Tolerance and Its Neutralization by HipB
journal, January 2009


Structural Mechanism of Transcriptional Autorepression of the Escherichia coli RelB/RelE Antitoxin/Toxin Module
journal, June 2008

  • Li, Guang-Yao; Zhang, Yonglong; Inouye, Masayori
  • Journal of Molecular Biology, Vol. 380, Issue 1
  • DOI: 10.1016/j.jmb.2008.04.039

Ribosome-dependent Vibrio cholerae mRNAse HigB2 is regulated by a β-strand sliding mechanism
journal, February 2017

  • Hadži, San; Garcia-Pino, Abel; Haesaerts, Sarah
  • Nucleic Acids Research, Vol. 45, Issue 8
  • DOI: 10.1093/nar/gkx138

Disorder- and Dynamics-Based Regulatory Mechanisms in Toxin–Antitoxin Modules
journal, December 2013

  • Loris, Remy; Garcia-Pino, Abel
  • Chemical Reviews, Vol. 114, Issue 13
  • DOI: 10.1021/cr400656f

Analytical Ultracentrifugation: Sedimentation Velocity and Sedimentation Equilibrium
book, January 2008

  • Cole, James L.; Lary, Jeffrey W.; Moody, Thomas P.
  • Biophysical Tools for Biologists, Volume One: In Vitro Techniques, p. 143-179
  • DOI: 10.1016/S0091-679X(07)84006-4

The Crystal Structure of the Intact E. coli RelBE Toxin-Antitoxin Complex Provides the Structural Basis for Conditional Cooperativity
journal, October 2012


A common mode of recognition for methylated CpG
journal, April 2013


Autoinducer 2 Controls Biofilm Formation in Escherichia coli through a Novel Motility Quorum-Sensing Regulator (MqsR, B3022)
journal, December 2005


Crystal Structure of the VapBC Toxin–Antitoxin Complex from Shigella flexneri Reveals a Hetero-Octameric DNA-Binding Assembly
journal, December 2011

  • Dienemann, Christian; Bøggild, Andreas; Winther, Kristoffer S.
  • Journal of Molecular Biology, Vol. 414, Issue 5
  • DOI: 10.1016/j.jmb.2011.10.024

Defining the mRNA recognition signature of a bacterial toxin protein
journal, October 2015

  • Schureck, Marc A.; Dunkle, Jack A.; Maehigashi, Tatsuya
  • Proceedings of the National Academy of Sciences, Vol. 112, Issue 45
  • DOI: 10.1073/pnas.1512959112

Antitoxin MqsA helps mediate the bacterial general stress response
journal, April 2011

  • Wang, Xiaoxue; Kim, Younghoon; Hong, Seok Hoon
  • Nature Chemical Biology, Vol. 7, Issue 6
  • DOI: 10.1038/nchembio.560

PARP1 exhibits enhanced association and catalytic efficiency with γH2A.X-nucleosome
journal, December 2019


Cavin1 intrinsically disordered domains are essential for fuzzy electrostatic interactions and caveola formation
journal, February 2021


PHENIX: a comprehensive Python-based system for macromolecular structure solution.
text, January 2010

  • Adams, Paul D.; Afonine, Pavel V.; Bunkóczi, Gábor
  • Apollo - University of Cambridge Repository
  • DOI: 10.17863/cam.45787

Works referencing / citing this record:

Type II Toxin-Antitoxin Systems: Evolution and Revolutions
journal, January 2020

  • Fraikin, Nathan; Goormaghtigh, Frédéric; Van Melderen, Laurence
  • Journal of Bacteriology, Vol. 202, Issue 7
  • DOI: 10.1128/jb.00763-19