8FEF

Structure of Mce1 transporter from Mycobacterium smegmatis (Map0)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.71 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Structure of an endogenous mycobacterial MCE lipid transporter.

Chen, J.Fruhauf, A.Fan, C.Ponce, J.Ueberheide, B.Bhabha, G.Ekiert, D.C.

(2023) Nature 620: 445-452

  • DOI: https://doi.org/10.1038/s41586-023-06366-0
  • Primary Citation of Related Structures:  
    8FED, 8FEE, 8FEF

  • PubMed Abstract: 

    To replicate inside macrophages and cause tuberculosis, Mycobacterium tuberculosis must scavenge a variety of nutrients from the host 1,2 . The mammalian cell entry (MCE) proteins are important virulence factors in M. tuberculosis 1,3 , where they are encoded by large gene clusters and have been implicated in the transport of fatty acids 4-7 and cholesterol 1,4,8 across the impermeable mycobacterial cell envelope. Very little is known about how cargos are transported across this barrier, and it remains unclear how the approximately ten proteins encoded by a mycobacterial mce gene cluster assemble to transport cargo across the cell envelope. Here we report the cryo-electron microscopy (cryo-EM) structure of the endogenous Mce1 lipid-import machine of Mycobacterium smegmatis-a non-pathogenic relative of M. tuberculosis. The structure reveals how the proteins of the Mce1 system assemble to form an elongated ABC transporter complex that is long enough to span the cell envelope. The Mce1 complex is dominated by a curved, needle-like domain that appears to be unrelated to previously described protein structures, and creates a protected hydrophobic pathway for lipid transport across the periplasm. Our structural data revealed the presence of a subunit of the Mce1 complex, which we identified using a combination of cryo-EM and AlphaFold2, and name LucB. Our data lead to a structural model for Mce1-mediated lipid import across the mycobacterial cell envelope.


  • Organizational Affiliation

    Department of Cell Biology, New York University School of Medicine, New York, NY, USA.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Virulence factor Mce family protein409Mycolicibacterium smegmatis MC2 155Mutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A0QNR2 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
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UniProt GroupA0QNR2
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Virulence factor Mce family protein343Mycolicibacterium smegmatis MC2 155Mutation(s): 0 
UniProt
Find proteins for A0QNR3 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
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UniProt GroupA0QNR3
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
MCE-family protein MCE1c524Mycolicibacterium smegmatis MC2 155Mutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A0QNR4 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
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UniProt GroupA0QNR4
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Virulence factor mce family protein547Mycolicibacterium smegmatis MC2 155Mutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A0QNR5 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
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UniProt GroupA0QNR5
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Virulence factor Mce family protein390Mycolicibacterium smegmatis MC2 155Mutation(s): 0 
UniProt
Find proteins for A0QNR6 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
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UniProt GroupA0QNR6
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Mce-family protein mce1f518Mycolicibacterium smegmatis MC2 155Mutation(s): 0 
UniProt
Find proteins for A0QNR7 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
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UniProt GroupA0QNR7
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
ABC transporter, ATP-binding protein,Green fluorescent protein chimera
G, H
653Mycolicibacterium smegmatis MC2 155Mutation(s): 0 
UniProt
Find proteins for P42212 (Aequorea victoria)
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Find proteins for A0QS64 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
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UniProt GroupsP42212A0QS64
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
Conserved hypothetical integral membrane protein Yrbe1a266Mycolicibacterium smegmatis MC2 155Mutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A0QNR0 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
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UniProt GroupA0QNR0
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
ABC-transporter integral membrane protein289Mycolicibacterium smegmatis MC2 155Mutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A0QNR1 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
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UniProt GroupA0QNR1
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Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
UNL (Subject of Investigation/LOI)
Query on UNL

Download Ideal Coordinates CCD File 
AA [auth D]
BA [auth D]
CA [auth D]
DA [auth E]
EA [auth E]
AA [auth D],
BA [auth D],
CA [auth D],
DA [auth E],
EA [auth E],
FA [auth E],
GA [auth E],
HA [auth E],
IA [auth E],
JA [auth E],
K [auth A],
KA [auth F],
L [auth A],
LA [auth F],
M [auth A],
MA [auth F],
N [auth B],
NA [auth F],
O [auth B],
OA [auth F],
P [auth B],
Q [auth B],
R [auth B],
S [auth B],
T [auth C],
U [auth C],
V [auth C],
W [auth C],
X [auth D],
Y [auth D],
Z [auth D]
Unknown ligand
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.71 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC3.3.1
MODEL REFINEMENTPHENIXv1.20.1

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesPEW-00033055
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesU24GM129547

Revision History  (Full details and data files)

  • Version 1.0: 2023-02-22
    Type: Initial release
  • Version 1.1: 2023-08-02
    Changes: Database references
  • Version 1.2: 2023-08-09
    Changes: Database references
  • Version 1.3: 2023-08-23
    Changes: Data collection, Database references