9EUL | pdb_00009eul

Cryo-EM structure of Staphylococcus aureus bacteriophage phi812 central spike protein - knob and petal domains

• PDB DOI: https://doi.org/10.2210/pdb9EUL/pdb
• EM Map EMD-19974: EMDB EMDataResource

• Classification: VIRAL PROTEIN
• Organism(s): Staphylococcus phage 812
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2024-03-27 Released: 2025-04-09 
• Deposition Author(s): Binovsky, J., Pichel-Beleiro, A., van Raaij, M.J., Plevka, P.
• Funding Organization(s): European Research Council (ERC), Other government

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.23 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Models: experimental, in silico

Literature

Cell attachment and tail contraction of S. aureus phage phi812

Binovsky, J., Pichel-Beleiro, A., van Raaij, M.J., Plevka, P.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 94.27 kDa 
• Atom Count: 3,044 
• Modeled Residue Count: 382 
• Deposited Residue Count: 832 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GP-PDE domain-containing protein	A	832	Staphylococcus phage 812	Mutation(s): 0  Gene Names: 812_115, 812a_115, 812F1_115, K1/420_115, K1_115
UniProt
Find proteins for A0A0U1WFD7 (Staphylococcus phage 812) Explore A0A0U1WFD7  Go to UniProtKB:  A0A0U1WFD7

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.23 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	RELION	5.0beta
MODEL REFINEMENT	PHENIX	1.21

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-04-09 
Deposition Author(s): Binovsky, J., Pichel-Beleiro, A., van Raaij, M.J., Plevka, P.

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Funding Organization	Location	Grant Number
European Research Council (ERC)	European Union	101043452
Other government	Czech Republic	LX22NP05103

Revision History  

• Version 1.0: 2025-04-09
  Type: Initial release