8EGR

Upper tail structure of Staphylococcus phage Andhra


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.58 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structure and host specificity of Staphylococcus epidermidis bacteriophage Andhra.

Hawkins, N.C.Kizziah, J.L.Hatoum-Aslan, A.Dokland, T.

(2022) Sci Adv 8: eade0459-eade0459

  • DOI: https://doi.org/10.1126/sciadv.ade0459
  • Primary Citation of Related Structures:  
    8EGR, 8EGS, 8EGT, 8EJ5

  • PubMed Abstract: 

    Staphylococcus epidermidis is an opportunistic pathogen of the human skin, often associated with infections of implanted medical devices. Staphylococcal picoviruses are a group of strictly lytic, short-tailed bacteriophages with compact genomes that are attractive candidates for therapeutic use. Here, we report the structure of the complete virion of S. epidermidis -infecting phage Andhra, determined using high-resolution cryo-electron microscopy, allowing atomic modeling of 11 capsid and tail proteins. The capsid is a T = 4 icosahedron containing a unique stabilizing capsid lining protein. The tail includes 12 trimers of a unique receptor binding protein (RBP), a lytic protein that also serves to anchor the RBPs to the tail stem, and a hexameric tail knob that acts as a gatekeeper for DNA ejection. Using structure prediction with AlphaFold, we identified the two proteins that comprise the tail tip heterooctamer. Our findings elucidate critical features for virion assembly, host recognition, and penetration.


  • Organizational Affiliation

    Department of Microbiology, University of Alabama at Birmingham, Birmingham, AL 35294, USA.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
gp15, receptor-binding protein, tail fiber
A, B, C, D, E
A, B, C, D, E, F
609Staphylococcus phage AndhraMutation(s): 0 
Gene Names: Andhra_15
UniProt
Find proteins for A0A1S6L1H3 (Staphylococcus phage Andhra)
Explore A0A1S6L1H3 
Go to UniProtKB:  A0A1S6L1H3
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UniProt GroupA0A1S6L1H3
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Upper collar protein
G, H
335Staphylococcus phage AndhraMutation(s): 0 
Gene Names: Andhra_17
UniProt
Find proteins for A0A1S6L1H9 (Staphylococcus phage Andhra)
Explore A0A1S6L1H9 
Go to UniProtKB:  A0A1S6L1H9
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UniProt GroupA0A1S6L1H9
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
gp16, tail stem proteinI [auth J],
J [auth I]
278Staphylococcus phage AndhraMutation(s): 0 
UniProt
Find proteins for A0A1S6L1H8 (Staphylococcus phage Andhra)
Explore A0A1S6L1H8 
Go to UniProtKB:  A0A1S6L1H8
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UniProt GroupA0A1S6L1H8
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
SGNH_hydro domain-containing protein
K, L
409Staphylococcus phage AndhraMutation(s): 0 
Gene Names: Andhra_06
UniProt
Find proteins for A0A1S6L1H1 (Staphylococcus phage Andhra)
Explore A0A1S6L1H1 
Go to UniProtKB:  A0A1S6L1H1
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UniProt GroupA0A1S6L1H1
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  • Reference Sequence
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
gp20, portal-proximal core protein
M, N, O, P, Q
M, N, O, P, Q, R, S, T, U, V, W, X
107Staphylococcus phage AndhraMutation(s): 0 
Gene Names: Andhra_20
UniProt
Find proteins for A0A1S6L1H7 (Staphylococcus phage Andhra)
Explore A0A1S6L1H7 
Go to UniProtKB:  A0A1S6L1H7
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UniProt GroupA0A1S6L1H7
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.58 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesAI156636

Revision History  (Full details and data files)

  • Version 1.0: 2022-12-14
    Type: Initial release
  • Version 1.1: 2024-06-19
    Changes: Data collection