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

Title: MmpL3 is a lipid transporter that binds trehalose monomycolate and phosphatidylethanolamine

Abstract

The cell envelope of Mycobacterium tuberculosis is notable for the abundance of mycolic acids (MAs), essential to mycobacterial viability, and of other species-specific lipids. The mycobacterial cell envelope is extremely hydrophobic, which contributes to virulence and antibiotic resistance. However, exactly how fatty acids and lipidic elements are transported across the cell envelope for cell-wall biosynthesis is unclear. Mycobacterial membrane protein Large 3 (MmpL3) is essential and required for transport of trehalose monomycolates (TMMs), precursors of MA-containing trehalose dimycolates (TDM) and mycolyl arabinogalactan peptidoglycan, but the exact function of MmpL3 remains elusive. Here, we report a crystal structure of Mycobacterium smegmatis MmpL3 at a resolution of 2.59 Å, revealing a monomeric molecule that is structurally distinct from all known bacterial membrane proteins. A previously unknown MmpL3 ligand, phosphatidylethanolamine (PE), was discovered inside this transporter. We also show, via native mass spectrometry, that MmpL3 specifically binds both TMM and PE, but not TDM, in the micromolar range. These observations provide insight into the function of MmpL3 and suggest a possible role for this protein in shuttling a variety of lipids to strengthen the mycobacterial cell wall.

Authors:
 [1];  [1]; ORCiD logo [2];  [3]; ORCiD logo [2]; ORCiD logo [1]
  1. Case Western Reserve Univ., Cleveland, OH (United States)
  2. Univ. of Oxford (United Kingdom)
  3. Oregon Health & Science Univ., Portland, OR (United States)
Publication Date:
Research Org.:
Argonne National Lab. (ANL), Argonne, IL (United States)
Sponsoring Org.:
National Institutes of Health (NIH)
OSTI Identifier:
1531017
Report Number(s):
AC02-06CH11357
Journal ID: ISSN 0027-8424
Resource Type:
Accepted Manuscript
Journal Name:
Proceedings of the National Academy of Sciences of the United States of America
Additional Journal Information:
Journal Volume: 116; Journal Issue: 23; Journal ID: ISSN 0027-8424
Publisher:
National Academy of Sciences
Country of Publication:
United States
Language:
ENGLISH
Subject:
59 BASIC BIOLOGICAL SCIENCES; mycobacterial membrane protein Large; cell-wall biogenesis; MmpL3 transporter; X-ray crystallography; native mass spectrometry

Citation Formats

Su, Chih-Chia, Klenotic, Philip A., Bolla, Jani Reddy, Purdy, Georgiana E., Robinson, Carol V., and Yu, Edward W. MmpL3 is a lipid transporter that binds trehalose monomycolate and phosphatidylethanolamine. United States: N. p., 2019. Web. doi:10.1073/pnas.1901346116.
Su, Chih-Chia, Klenotic, Philip A., Bolla, Jani Reddy, Purdy, Georgiana E., Robinson, Carol V., & Yu, Edward W. MmpL3 is a lipid transporter that binds trehalose monomycolate and phosphatidylethanolamine. United States. https://doi.org/10.1073/pnas.1901346116
Su, Chih-Chia, Klenotic, Philip A., Bolla, Jani Reddy, Purdy, Georgiana E., Robinson, Carol V., and Yu, Edward W. Tue . "MmpL3 is a lipid transporter that binds trehalose monomycolate and phosphatidylethanolamine". United States. https://doi.org/10.1073/pnas.1901346116. https://www.osti.gov/servlets/purl/1531017.
@article{osti_1531017,
title = {MmpL3 is a lipid transporter that binds trehalose monomycolate and phosphatidylethanolamine},
author = {Su, Chih-Chia and Klenotic, Philip A. and Bolla, Jani Reddy and Purdy, Georgiana E. and Robinson, Carol V. and Yu, Edward W.},
abstractNote = {The cell envelope of Mycobacterium tuberculosis is notable for the abundance of mycolic acids (MAs), essential to mycobacterial viability, and of other species-specific lipids. The mycobacterial cell envelope is extremely hydrophobic, which contributes to virulence and antibiotic resistance. However, exactly how fatty acids and lipidic elements are transported across the cell envelope for cell-wall biosynthesis is unclear. Mycobacterial membrane protein Large 3 (MmpL3) is essential and required for transport of trehalose monomycolates (TMMs), precursors of MA-containing trehalose dimycolates (TDM) and mycolyl arabinogalactan peptidoglycan, but the exact function of MmpL3 remains elusive. Here, we report a crystal structure of Mycobacterium smegmatis MmpL3 at a resolution of 2.59 Å, revealing a monomeric molecule that is structurally distinct from all known bacterial membrane proteins. A previously unknown MmpL3 ligand, phosphatidylethanolamine (PE), was discovered inside this transporter. We also show, via native mass spectrometry, that MmpL3 specifically binds both TMM and PE, but not TDM, in the micromolar range. These observations provide insight into the function of MmpL3 and suggest a possible role for this protein in shuttling a variety of lipids to strengthen the mycobacterial cell wall.},
doi = {10.1073/pnas.1901346116},
journal = {Proceedings of the National Academy of Sciences of the United States of America},
number = 23,
volume = 116,
place = {United States},
year = {2019},
month = {5}
}

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:

The Structure and Interactions of Periplasmic Domains of Crucial MmpL Membrane Proteins from Mycobacterium tuberculosis
journal, August 2015


Crystal Structures of Membrane Transporter MmpL3, an Anti-TB Drug Target
journal, January 2019


Crystal Structure of the Multidrug Exporter MexB from Pseudomonas aeruginosa
journal, May 2009

  • Sennhauser, Gaby; Bukowska, Magdalena A.; Briand, Christophe
  • Journal of Molecular Biology, Vol. 389, Issue 1
  • DOI: 10.1016/j.jmb.2009.04.001

Tuberculosis—advances in development of new drugs, treatment regimens, host-directed therapies, and biomarkers
journal, April 2016


Designer Arrays for Defined Mutant Analysis To Detect Genes Essential for Survival of Mycobacterium tuberculosis in Mouse Lungs
journal, March 2005


In Vivo Activity of Released Cell Wall Lipids of Mycobacterium bovis Bacillus Calmette-Guérin Is Due Principally to Trehalose Mycolates
journal, April 2005


Pathway to Synthesis and Processing of Mycolic Acids in Mycobacterium tuberculosis
journal, January 2005


Crystal structures of the CusA efflux pump suggest methionine-mediated metal transport
journal, September 2010

  • Long, Feng; Su, Chih-Chia; Zimmermann, Michael T.
  • Nature, Vol. 467, Issue 7314
  • DOI: 10.1038/nature09395

Mycobacterial Lysocardiolipin Is Exported from Phagosomes upon Cleavage of Cardiolipin by a Macrophage-Derived Lysosomal Phospholipase A 2
journal, August 2001


Cytokine Message and Protein Expression During Lung Granuloma Formation and Resolution Induced by the Mycobacterial Cord Factor Trehalose-6,6′-Dimycolate
journal, September 2000

  • Perez, Rafael L.; Roman, Jesse; Roser, Susanne
  • Journal of Interferon & Cytokine Research, Vol. 20, Issue 9
  • DOI: 10.1089/10799900050151067

Structure–Function Profile of MmpL3, the Essential Mycolic Acid Transporter from Mycobacterium tuberculosis
journal, September 2016


Crystal structures of a multidrug transporter reveal a functionally rotating mechanism
journal, August 2006

  • Murakami, Satoshi; Nakashima, Ryosuke; Yamashita, Eiki
  • Nature, Vol. 443, Issue 7108
  • DOI: 10.1038/nature05076

The Role of MmpL8 in Sulfatide Biogenesis and Virulence of Mycobacterium tuberculosis
journal, March 2004

  • Domenech, Pilar; Reed, Michael B.; Dowd, Cynthia S.
  • Journal of Biological Chemistry, Vol. 279, Issue 20
  • DOI: 10.1074/jbc.M400324200

Complex lipid determines tissue-specific replication of Mycobacterium tuberculosis in mice
journal, November 1999

  • Cox, Jeffery S.; Chen, Bing; McNeil, Michael
  • Nature, Vol. 402, Issue 6757
  • DOI: 10.1038/47042

Role of the Major Antigen of Mycobacterium tuberculosis in Cell Wall Biogenesis
journal, May 1997


Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence
journal, June 1998

  • Cole, S. T.; Brosch, R.; Parkhill, J.
  • Nature, Vol. 393, Issue 6685
  • DOI: 10.1038/31159

Charged Amino Acids (R83, E567, D617, E625, R669, and K678) of CusA Are Required for Metal Ion Transport in the Cus Efflux System
journal, September 2012


The Envelope of Mycobacteria
journal, June 1995


Sulfolipid-1 Biosynthesis Restricts Mycobacterium tuberculosis Growth in Human Macrophages
journal, February 2012

  • Gilmore, Sarah A.; Schelle, Michael W.; Holsclaw, Cynthia M.
  • ACS Chemical Biology, Vol. 7, Issue 5
  • DOI: 10.1021/cb200311s

Inhibition of mycolic acid transport across the Mycobacterium tuberculosis plasma membrane
journal, February 2012

  • Grzegorzewicz, Anna E.; Pham, Ha; Gundi, Vijay A. K. B.
  • Nature Chemical Biology, Vol. 8, Issue 4
  • DOI: 10.1038/nchembio.794

MmpL Genes Are Associated with Mycolic Acid Metabolism in Mycobacteria and Corynebacteria
journal, April 2012


Novel Insights into the Mechanism of Inhibition of MmpL3, a Target of Multiple Pharmacophores in Mycobacterium tuberculosis
journal, August 2014

  • Li, Wei; Upadhyay, Ashutosh; Fontes, Fabio L.
  • Antimicrobial Agents and Chemotherapy, Vol. 58, Issue 11
  • DOI: 10.1128/AAC.03229-14

Crystal structure of bacterial multidrug efflux transporter AcrB
journal, October 2002

  • Murakami, Satoshi; Nakashima, Ryosuke; Yamashita, Eiki
  • Nature, Vol. 419, Issue 6907
  • DOI: 10.1038/nature01050

Crystal Structure of the Neisseria gonorrhoeae MtrD Inner Membrane Multidrug Efflux Pump
journal, June 2014


Crystal structures of the Burkholderia multivorans hopanoid transporter HpnN
journal, June 2017

  • Kumar, Nitin; Su, Chih-Chia; Chou, Tsung-Han
  • Proceedings of the National Academy of Sciences, Vol. 114, Issue 25
  • DOI: 10.1073/pnas.1619660114

Conditional Depletion of KasA, a Key Enzyme of Mycolic Acid Biosynthesis, Leads to Mycobacterial Cell Lysis
journal, November 2005


Structures of intermediate transport states of ZneA, a Zn(II)/proton antiporter
journal, October 2013

  • Pak, J. E.; Ekende, E. N.; Kifle, E. G.
  • Proceedings of the National Academy of Sciences, Vol. 110, Issue 46
  • DOI: 10.1073/pnas.1318705110

The Mycobacterial Cell Envelope--Lipids
journal, August 2014


Structures and transport dynamics of a Campylobacter jejuni multidrug efflux pump
journal, August 2017


inhA, a gene encoding a target for isoniazid and ethionamide in Mycobacterium tuberculosis
journal, January 1994


Phosphatidylinositol Is an Essential Phospholipid of Mycobacteria
journal, July 2000

  • Jackson, Mary; Crick, Dean C.; Brennan, Patrick J.
  • Journal of Biological Chemistry, Vol. 275, Issue 39
  • DOI: 10.1074/jbc.M004658200

Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence
journal, November 1998

  • Cole, S. T.; Brosch, R.; Parkhill, J.
  • Nature, Vol. 396, Issue 6707
  • DOI: 10.1038/24206

Analysis of the Phthiocerol Dimycocerosate Locus of Mycobacterium tuberculosis : EVIDENCE THAT THIS LIPID IS INVOLVED IN THE CELL WALL PERMEABILITY BARRIER
journal, March 2001

  • Camacho, Luis R.; Constant, Patricia; Raynaud, Catherine
  • Journal of Biological Chemistry, Vol. 276, Issue 23
  • DOI: 10.1074/jbc.M100662200

MmpL3 is the flippase for mycolic acids in mycobacteria
journal, July 2017

  • Xu, Zhujun; Meshcheryakov, Vladimir A.; Poce, Giovanna
  • Proceedings of the National Academy of Sciences, Vol. 114, Issue 30
  • DOI: 10.1073/pnas.1700062114

Contribution of the Mycobacterium tuberculosis MmpL Protein Family to Virulence and Drug Resistance
journal, May 2005


Crystal structure of the CusBA heavy-metal efflux complex of Escherichia coli
journal, February 2011

  • Su, Chih-Chia; Long, Feng; Zimmermann, Michael T.
  • Nature, Vol. 470, Issue 7335
  • DOI: 10.1038/nature09743

Granuloma Formation Induced in Mice by Chemically Defined Mycobacterial Fractions
journal, October 1969


Crystal structure of the multidrug exporter MexB from Pseudomonas aeruginosa
text, January 2009


Works referencing / citing this record:

AcrB: a mean, keen, drug efflux machine
journal, September 2019

  • Kobylka, Jessica; Kuth, Miriam S.; Müller, Reinke T.
  • Annals of the New York Academy of Sciences, Vol. 1459, Issue 1
  • DOI: 10.1111/nyas.14239

A piperidinol-containing molecule is active against Mycobacterium tuberculosis by inhibiting the mycolic acid flippase activity of MmpL3
journal, September 2019

  • Dupont, Christian; Chen, Yushu; Xu, Zhujun
  • Journal of Biological Chemistry, Vol. 294, Issue 46
  • DOI: 10.1074/jbc.ra119.010135

Promiscuous Targets for Antitubercular Drug Discovery: The Paradigm of DprE1 and MmpL3
journal, January 2020

  • Degiacomi, Giulia; Belardinelli, Juan Manuel; Pasca, Maria Rosalia
  • Applied Sciences, Vol. 10, Issue 2
  • DOI: 10.3390/app10020623

The MmpL3 interactome reveals a complex crosstalk between cell envelope biosynthesis and cell elongation and division in mycobacteria
journal, July 2019


The crystal structure of the mycobacterial trehalose monomycolate transport factor A, TtfA, reveals an atypical fold
journal, December 2019

  • Ung, Kien Lam; Alsarraf, Husam M. A. B.; Kremer, Laurent
  • Proteins: Structure, Function, and Bioinformatics, Vol. 88, Issue 6
  • DOI: 10.1002/prot.25863

Identification of novel scaffolds targeting Mycobacterium tuberculosis
journal, November 2019

  • Dal Molin, Michael; Selchow, Petra; Schäfle, Daniel
  • Journal of Molecular Medicine, Vol. 97, Issue 11
  • DOI: 10.1007/s00109-019-01840-7

Identification of New MmpL3 Inhibitors by Untargeted and Targeted Mutant Screens Defines MmpL3 Domains with Differential Resistance
journal, August 2019

  • Williams, John T.; Haiderer, Elizabeth R.; Coulson, Garry B.
  • Antimicrobial Agents and Chemotherapy, Vol. 63, Issue 10
  • DOI: 10.1128/aac.00547-19

Identification of novel scaffolds targeting Mycobacterium tuberculosis
text, January 2019