8FED

Structure of Mce1-LucB complex from Mycobacterium smegmatis (Map1)

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.76 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 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.

(2023) Res Sq 

  • DOI: https://doi.org/10.21203/rs.3.rs-2412186/v1
  • Primary Citation of Related Structures:  
    8FED, 8FEE, 8FEF

  • PubMed Abstract: 

    • To replicate inside human macrophages and cause the disease tuberculosis, Mycobacterium tuberculosis ( Mtb ) must scavenge a variety of nutrients from the host 1,2 . The Mammalian Cell Entry (MCE) proteins are important virulence factors in Mtb 1,3 , where they are encoded in large gene clusters and have been implicated in the transport of fatty acids 4â€"7 and cholesterol 1,4,8 across the impermeable mycobacterial cell envelope ...

    To replicate inside human macrophages and cause the disease tuberculosis, Mycobacterium tuberculosis ( Mtb ) must scavenge a variety of nutrients from the host 1,2 . The Mammalian Cell Entry (MCE) proteins are important virulence factors in Mtb 1,3 , where they are encoded in large gene clusters and have been implicated in the transport of fatty acids 4â€"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 how the ~10 proteins encoded in a mycobacterial mce gene cluster might assemble to transport cargo across the cell envelope remains unknown. Here we report the cryo-EM structure of the endogenous Mce1 fatty acid import machine from Mycobacterium smegmatis , a non-pathogenic relative of Mtb . The structure reveals how the proteins of the Mce1 system assemble to form an elongated ABC transporter complex, 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. Unexpectedly, our structural data revealed the presence of a previously unknown 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 fatty acid import across the mycobacterial cell envelope.

    Organizational Affiliation: 

    Laboratory for Marine Biology and Biotechnology, Pilot National Laboratory for Marine Science and Technology, Qingdao, China. zhangyz@sdu.edu.cn.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Virulence factor Mce family proteinA409Mycolicibacterium smegmatis MC2 155Mutation(s): 0 
Gene Names: MSMEG_0134
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
MoleculeChainsSequence LengthOrganismDetailsImage
Virulence factor Mce family proteinB343Mycolicibacterium smegmatis MC2 155Mutation(s): 0 
Gene Names: MSMEG_0135
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
MoleculeChainsSequence LengthOrganismDetailsImage
MCE-family protein MCE1cC524Mycolicibacterium smegmatis MC2 155Mutation(s): 0 
Gene Names: mce1C, MSMEI_0133
Membrane Entity: Yes 
UniProt
Find proteins for I7G2J2 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
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UniProt GroupI7G2J2
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Virulence factor mce family proteinD547Mycolicibacterium smegmatis MC2 155Mutation(s): 0 
Gene Names: MSMEG_0137
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
MoleculeChainsSequence LengthOrganismDetailsImage
Virulence factor Mce family proteinE390Mycolicibacterium smegmatis MC2 155Mutation(s): 0 
Gene Names: MSMEG_0138
UniProt
Find proteins for A0QNR6 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
Mce-family protein mce1fF518Mycolicibacterium smegmatis MC2 155Mutation(s): 0 
Gene Names: MSMEG_0139
UniProt
Find proteins for A0QNR7 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
ABC transporter, ATP-binding protein,Green fluorescent protein chimeraG, H653Mycolicibacterium smegmatis MC2 155Mutation(s): 0 
Gene Names: MSMEG_1366
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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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
Conserved hypothetical integral membrane protein Yrbe1aI266Mycolicibacterium smegmatis MC2 155Mutation(s): 0 
Gene Names: yrbE1A, MSMEI_0129
Membrane Entity: Yes 
UniProt
Find proteins for I7F4Q4 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
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UniProt GroupI7F4Q4
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
ABC-transporter integral membrane proteinJ289Mycolicibacterium smegmatis MC2 155Mutation(s): 0 
Gene Names: MSMEG_0133
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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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetailsImage
Transmembrane proteinK191Mycolicibacterium smegmatis MC2 155Mutation(s): 0 
Gene Names: MSMEG_3032
Membrane Entity: Yes 
UniProt
Find proteins for A0QWR2 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
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Small Molecules
Ligands 1 Unique
IDChainsName / 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 D],
EA [auth E],
AA [auth D],
BA [auth D],
CA [auth D],
DA [auth D],
EA [auth E],
FA [auth E],
GA [auth E],
HA [auth E],
IA [auth E],
JA [auth E],
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],
PA [auth F],
Q [auth B],
R [auth B],
S [auth B],
T [auth B],
U [auth C],
V [auth C],
W [auth C],
X [auth C],
Y [auth D],
Z [auth D]
Unknown ligand
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.76 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIXv1.20.1
RECONSTRUCTIONcryoSPARC3.3.1

Structure Validation

View Full Validation Report



View more in-depth experimental data
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