CryoEM structure of type II secretion system secretin GspD G453A mutant in Vibrio cholerae

Experimental Data Snapshot

  • Resolution: 4.22 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

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This is version 1.2 of the entry. See complete history


Structural insights into the secretin translocation channel in the type II secretion system

Yan, Z.Yin, M.Xu, D.Zhu, Y.Li, X.

(2017) Nat Struct Mol Biol 24: 177-183

  • DOI: https://doi.org/10.1038/nsmb.3350
  • Primary Citation of Related Structures:  
    5WQ7, 5WQ8, 5WQ9

  • PubMed Abstract: 

    The secretin GspD of the type II secretion system (T2SS) forms a channel across the outer membrane in Gram-negative bacteria to transport substrates from the periplasm to the extracellular milieu. The lack of an atomic-resolution structure of the GspD channel hinders the investigation of substrate translocation mechanism of T2SS. Here we report cryo-EM structures of two GspD channels (∼1 MDa), from Escherichia coli K12 and Vibrio cholerae, at ∼3 Å resolution. The structures reveal a pentadecameric channel architecture, wherein three rings of GspD N domains form the periplasmic channel. The secretin domain constitutes a novel double β-barrel channel, with at least 60 β-strands in each barrel, and is stabilized by S domains. The outer membrane channel is sealed by β-strand-enriched gates. On the basis of the partially open state captured, we proposed a detailed gate-opening mechanism. Our structures provide a structural basis for understanding the secretin superfamily and the mechanism of substrate translocation in T2SS.

  • Organizational Affiliation

    School of Life Sciences, Tsinghua University, Beijing, China.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Type II secretion system protein D
A, B, C, D, E
A, B, C, D, E, F, G, H, I, J, K, L, M, N, O
650Vibrio cholerae O1 biovar El Tor str. N16961Mutation(s): 1 
Gene Names: epsDVC_2733
Membrane Entity: Yes 
Find proteins for P45779 (Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961))
Explore P45779 
Go to UniProtKB:  P45779
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UniProt GroupP45779
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 4.22 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2016-12-28
    Type: Initial release
  • Version 1.1: 2017-01-11
    Changes: Database references
  • Version 1.2: 2017-02-22
    Changes: Database references