7RFQ

STRUCTURE OF BACTERIAL SYLF DOMAIN CONTAINING PROTEIN, BETA CELL EXPANSION FACTOR A (BEFA)

  • Classification: SIGNALING PROTEIN
  • Organism(s): Aeromonas veronii
  • Expression System: Escherichia coli
  • Mutation(s): No 

  • Deposited: 2021-07-14 Released: 2022-07-20 
  • Deposition Author(s): Sweeney, E.G.
  • Funding Organization(s): National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK)

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.27 Å
  • R-Value Free: 0.155 
  • R-Value Work: 0.131 
  • R-Value Observed: 0.132 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

BefA, a microbiota-secreted membrane disrupter, disseminates to the pancreas and increases beta cell mass.

Hill, J.H.Massaquoi, M.S.Sweeney, E.G.Wall, E.S.Jahl, P.Bell, R.Kallio, K.Derrick, D.Murtaugh, L.C.Parthasarathy, R.Remington, S.J.Round, J.L.Guillemin, K.

(2022) Cell Metab 34: 1779-1791.e9

  • DOI: https://doi.org/10.1016/j.cmet.2022.09.001
  • Primary Citation of Related Structures:  
    7RFQ

  • PubMed Abstract: 

    Microbiome dysbiosis is a feature of diabetes, but how microbial products influence insulin production is poorly understood. We report the mechanism of BefA, a microbiome-derived protein that increases proliferation of insulin-producing β cells during development in gnotobiotic zebrafish and mice. BefA disseminates systemically by multiple anatomic routes to act directly on pancreatic islets. We detail BefA's atomic structure, containing a lipid-binding SYLF domain, and demonstrate that it permeabilizes synthetic liposomes and bacterial membranes. A BefA mutant impaired in membrane disruption fails to expand β cells, whereas the pore-forming host defense protein, Reg3, stimulates β cell proliferation. Our work demonstrates that membrane permeabilization by microbiome-derived and host defense proteins is necessary and sufficient for β cell expansion during pancreas development, potentially connecting microbiome composition with diabetes risk.


  • Organizational Affiliation

    Institute of Molecular Biology, University of Oregon, Eugene, OR 97403, USA; Department of Pathology, Division of Microbiology and Immunology, University of Utah, Salt Lake City, UT 84112, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
BETA CELL EXPANSION FACTOR A (BEFA)270Aeromonas veroniiMutation(s): 0 
Gene Names: AMS64_07270
UniProt
Find proteins for A0A2S3XLU2 (Aeromonas veronii)
Explore A0A2S3XLU2 
Go to UniProtKB:  A0A2S3XLU2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A2S3XLU2
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.27 Å
  • R-Value Free: 0.155 
  • R-Value Work: 0.131 
  • R-Value Observed: 0.132 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 94.67α = 90
b = 64.55β = 113.26
c = 42.63γ = 90
Software Package:
Software NamePurpose
SCALAdata scaling
PHENIXrefinement
PDB_EXTRACTdata extraction
HKL-2000data reduction
AutoSolphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK)--

Revision History  (Full details and data files)

  • Version 1.0: 2022-07-20
    Type: Initial release
  • Version 1.1: 2022-11-02
    Changes: Database references
  • Version 1.2: 2022-11-09
    Changes: Database references