8X6X | pdb_00008x6x

Structure of the multidrug efflux pump EfpA from M. tuberculosis complexed with lipids


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.92 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structure and function of Mycobacterium tuberculosis EfpA as a lipid transporter and its inhibition by BRD-8000.3.

Li, D.Zhang, X.Yao, Y.Sun, X.Sun, J.Ma, X.Yuan, K.Bai, G.Pang, X.Hua, R.Guo, T.Mi, Y.Wu, L.Zhang, J.Wu, Y.Liu, Y.Wang, P.Wong, C.C.L.Chen, X.W.Xiao, H.Gao, G.F.Gao, F.

(2024) Proc Natl Acad Sci U S A 121: e2412653121-e2412653121

  • DOI: https://doi.org/10.1073/pnas.2412653121
  • Primary Citation of Related Structures:  
    8X6X, 8YNZ

  • PubMed Abstract: 

    EfpA, the first major facilitator superfamily (MFS) protein identified in Mycobacterium tuberculosis (Mtb), is an essential efflux pump implicated in resistance to multiple drugs. EfpA-inhibitors have been developed to kill drug-tolerant Mtb. However, the biological function of EfpA has not yet been elucidated. Here, we present the cryo-EM structures of EfpA complexed with lipids or the inhibitor BRD-8000.3 at resolutions of 2.9 Å and 3.4 Å, respectively. Unexpectedly, EfpA forms an antiparallel dimer. Functional studies reveal that EfpA is a lipid transporter and BRD-8000.3 inhibits its lipid transport activity. Intriguingly, the mutation V319F, known to confer resistance to BRD-8000.3, alters the expression level and oligomeric state of EfpA. Based on our results and the observation of other antiparallel dimers in the MFS family, we propose an antiparallel-function model of EfpA. Collectively, our work provides structural and functional insights into EfpA's role in lipid transport and drug resistance, which would accelerate the development of antibiotics against this promising drug target.


  • Organizational Affiliation
    • Laboratory of Protein Engineering and Vaccines, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Uncharacterized MFS-type transporter EfpA
A, B
569Mycobacterium tuberculosisMutation(s): 0 
Gene Names: efpA
Membrane Entity: Yes 
UniProt
Find proteins for P9WJY5 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
Explore P9WJY5 
Go to UniProtKB:  P9WJY5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP9WJY5
Sequence Annotations
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  • Reference Sequence
Small Molecules
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.92 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Science Foundation (NSF, China)China82272379
Other government2019A1515110675

Revision History  (Full details and data files)

  • Version 1.0: 2024-11-27
    Type: Initial release
  • Version 1.1: 2025-12-10
    Changes: Data collection, Database references