5HFS

CRYSTAL STRUCTURE OF C-TERMINAL DOMAIN OF CARGO PROTEINS OF TYPE IX SECRETION SYSTEM


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.97 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.219 
  • R-Value Observed: 0.221 

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This is version 1.0 of the entry. See complete history


Literature

The outer-membrane export signal of Porphyromonas gingivalis type IX secretion system (T9SS) is a conserved C-terminal beta-sandwich domain.

de Diego, I.Ksiazek, M.Mizgalska, D.Koneru, L.Golik, P.Szmigielski, B.Nowak, M.Nowakowska, Z.Potempa, B.Houston, J.A.Enghild, J.J.Thgersen, I.B.Gao, J.Kwan, A.H.Trewhella, J.Dubin, G.Gomis-Ruth, F.X.Nguyen, K.A.Potempa, J.

(2016) Sci Rep 6: 23123-23123

  • DOI: 10.1038/srep23123
  • Primary Citation of Related Structures:  
    5AG8, 5AG9, 5HFS

  • PubMed Abstract: 
  • In the recently characterized Type IX Secretion System (T9SS), the conserved C-terminal domain (CTD) in secreted proteins functions as an outer membrane translocation signal for export of virulence factors to the cell surface in the Gram-negative Bacteroidetes phylum ...

    In the recently characterized Type IX Secretion System (T9SS), the conserved C-terminal domain (CTD) in secreted proteins functions as an outer membrane translocation signal for export of virulence factors to the cell surface in the Gram-negative Bacteroidetes phylum. In the periodontal pathogen Porphyromonas gingivalis, the CTD is cleaved off by PorU sortase in a sequence-independent manner, and anionic lipopolysaccharide (A-LPS) is attached to many translocated proteins, thus anchoring them to the bacterial surface. Here, we solved the atomic structure of the CTD of gingipain B (RgpB) from P. gingivalis, alone and together with a preceding immunoglobulin-superfamily domain (IgSF). The CTD was found to possess a typical Ig-like fold encompassing seven antiparallel β-strands organized in two β-sheets, packed into a β-sandwich structure that can spontaneously dimerise through C-terminal strand swapping. Small angle X-ray scattering (SAXS) revealed no fixed orientation of the CTD with respect to the IgSF. By introducing insertion or substitution of residues within the inter-domain linker in the native protein, we were able to show that despite the region being unstructured, it nevertheless is resistant to general proteolysis. These data suggest structural motifs located in the two adjacent Ig-like domains dictate the processing of CTDs by the T9SS secretion pathway.


    Organizational Affiliation

    Department of Oral Immunology and Infectious Diseases, University of Louisville School of Dentistry, Louisville, KY, USA.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Gingipain R2A, B72Porphyromonas gingivalisMutation(s): 0 
Gene Names: rgpBprtRIIrgp2PG_0506
EC: 3.4.22.37
UniProt
Find proteins for P95493 (Porphyromonas gingivalis (strain ATCC BAA-308 / W83))
Explore P95493 
Go to UniProtKB:  P95493
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.97 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.219 
  • R-Value Observed: 0.221 
  • Space Group: P 65
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 37.69α = 90
b = 37.69β = 90
c = 184.15γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
iMOSFLMdata reduction
SCALAdata scaling
PHASERphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2016-04-06
    Type: Initial release