9EUK | pdb_00009euk

Cryo-EM structure of Staphylococcus aureus bacteriophage phi812 baseplate in the post-contraction state - sheath initiator, wedge module, and inner tripod proteins

• PDB DOI: https://doi.org/10.2210/pdb9EUK/pdb
• EM Map EMD-19973: EMDB EMDataResource

• Classification: VIRUS
• Organism(s): Staphylococcus phage 812
• Mutation(s): No 


• Deposited: 2024-03-27 Released: 2025-04-09 
• Deposition Author(s): Binovsky, J., Siborova, M., Baska, R., Pichel-Beleiro, A., Skubnik, K., Novacek, J., 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: 3.10 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cell attachment and tail contraction of S. aureus phage phi812

Binovsky, J., Siborova, M., Baska, R., Pichel-Beleiro, A., Skubnik, K., Novacek, J., van Raaij, M.J., Plevka, P.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C6  (Explore in 3D)
Global Stoichiometry: Hetero 42-mer - A18B12C6D6 Pseudo Symmetry: Cyclic - C6  (Explore in 3D)
Pseudo Stoichiometry: Hetero 42-mer - A18B6C6D6E6 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 609.29 kDa 
• Atom Count: 29,739 
• Modeled Residue Count: 3,756 
• Deposited Residue Count: 5,405 
• Unique protein chains: 4

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Baseplate wedge subunit	A	234	Staphylococcus phage 812	Mutation(s): 0
UniProt
Find proteins for A0A0U1UXD7 (Staphylococcus phage 812) Explore A0A0U1UXD7  Go to UniProtKB:  A0A0U1UXD7

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Baseplate component	B, C	348	Staphylococcus phage 812	Mutation(s): 0
UniProt
Find proteins for A0A0U1WF63 (Staphylococcus phage 812) Explore A0A0U1WF63  Go to UniProtKB:  A0A0U1WF63

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
TmpF	D	1,019	Staphylococcus phage 812	Mutation(s): 0
UniProt
Find proteins for A0A0U1WGD3 (Staphylococcus phage 812) Explore A0A0U1WGD3  Go to UniProtKB:  A0A0U1WGD3

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
DUF4815 domain-containing protein	E, F, G	1,152	Staphylococcus phage 812	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.10 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	RELION	4.0
MODEL REFINEMENT	PHENIX

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-04-09 
Deposition Author(s): Binovsky, J., Siborova, M., Baska, R., Pichel-Beleiro, A., Skubnik, K., Novacek, J., 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