9GRC

Cryo-EM structure of lipoprotein-bound LolCDE in nanodiscs


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Deciphering the molecular basis of lipoprotein recognition and transport by LolCDE.

Qiao, W.Shen, C.Chen, Y.Chang, S.Wang, X.Yang, L.Pang, J.Luo, Q.Zhang, Z.Xiang, Y.Zhao, C.Lu, G.Ding, B.S.Ying, B.Tang, X.Dong, H.

(2024) Signal Transduct Target Ther 9: 354-354

  • DOI: https://doi.org/10.1038/s41392-024-02067-w
  • Primary Citation of Related Structures:  
    9GRC, 9GVK

  • PubMed Abstract: 

    Outer membrane (OM) lipoproteins serve vital roles in Gram-negative bacteria, contributing to their pathogenicity and drug resistance. For these lipoproteins to function, they must be transported from the inner membrane (IM), where they are assembled, to the OM by the ABC transporter LolCDE. We have previously captured structural snapshots of LolCDE in multiple states, revealing its dynamic conformational changes. However, the exact mechanism by which LolCDE recognizes and transfers lipoprotein between domains remains unclear. Here, we characterized the E. coli LolCDE complex bound with endogenous lipoprotein or ATP to explore the molecular features governing its substrate binding and transport functions. We found that the N-terminal unstructured linker of lipoprotein is critical for efficient binding by LolCDE; it must be sufficiently long to keep the lipoprotein's main body outside the complex while allowing the triacyl chains to bind within the central cavity. Mutagenic assays identified key residues that mediate allosteric communication between the cytoplasmic and transmembrane domains and in the periplasmic domain to form a lipoprotein transport pathway at the LolC-LolE interface. This study provides insights into the OM lipoprotein relocation process mediated by LolCDE, with significant implications for antimicrobial drug development.


  • Organizational Affiliation

    Department of Laboratory Medicine, State Key Laboratory of Biotherapy, National Clinical Research Center for Geriatrics, West China Hospital, Sichuan University and Collaborative Innovation Center of Biotherapy, Chengdu, China.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Lipoprotein-releasing system transmembrane protein LolCA [auth C]399Escherichia coli K-12Mutation(s): 0 
Gene Names: lolCycfUb1116JW5161
Membrane Entity: Yes 
UniProt
Find proteins for P0ADC3 (Escherichia coli (strain K12))
Explore P0ADC3 
Go to UniProtKB:  P0ADC3
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UniProt GroupP0ADC3
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Lipoprotein-releasing system transmembrane protein LolEB [auth E]414Escherichia coli K-12Mutation(s): 0 
Gene Names: lolEycfWb1118JW1104
Membrane Entity: Yes 
UniProt
Find proteins for P75958 (Escherichia coli (strain K12))
Explore P75958 
Go to UniProtKB:  P75958
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UniProt GroupP75958
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Lipoprotein-releasing system ATP-binding protein LolDC [auth F],
D
241Escherichia coli K-12Mutation(s): 0 
Gene Names: lolDycfVb1117JW5162
EC: 7.6.2
Membrane Entity: Yes 
UniProt
Find proteins for P75957 (Escherichia coli (strain K12))
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Go to UniProtKB:  P75957
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UniProt GroupP75957
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  • Reference Sequence

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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
lipoprotein(LPP)E [auth V]10Escherichia coli K-12Mutation(s): 0 
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  • Reference Sequence
Small Molecules
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China81971974

Revision History  (Full details and data files)

  • Version 1.0: 2025-01-08
    Type: Initial release
  • Version 1.1: 2025-01-15
    Changes: Data collection, Database references
  • Version 1.2: 2025-01-22
    Changes: Data collection