9EUI | pdb_00009eui

Cryo-EM structure of Staphylococcus aureus bacteriophage phi812 baseplate in the post-contraction state - complete

• PDB DOI: https://doi.org/10.2210/pdb9EUI/pdb
• EM Map EMD-19971: EMDB EMDataResource

• Classification: VIRUS
• 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., 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: 4.40 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  

Local Symmetry: Cyclic - C3  (Explore in 3D)
Local Stoichiometry: Homo 3-mer - D3 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - B2 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - B2 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - B2 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - B2 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - B2 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 1,665.38 kDa 
• Atom Count: 92,215 
• Modeled Residue Count: 12,485 
• Deposited Residue Count: 14,921 
• Unique protein chains: 7

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 Q4ZA00 (Staphylococcus phage G1) Explore Q4ZA00  Go to UniProtKB:  Q4ZA00

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 Q4Z9Z9 (Staphylococcus phage G1) Explore Q4Z9Z9  Go to UniProtKB:  Q4Z9Z9

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
Major tail sheath protein	E, F, G, H, I, J	587	Staphylococcus phage 812	Mutation(s): 0
UniProt
Find proteins for A0A0U1WZ79 (Staphylococcus phage 812) Explore A0A0U1WZ79  Go to UniProtKB:  A0A0U1WZ79

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
Baseplate protein	K, L, M, N, O, P	194	Staphylococcus phage 812	Mutation(s): 0  Gene Names: 812_119, 812_121, 812a_121, 812F1_121, K1/420_121, K1_121
UniProt
Find proteins for Q4Z9Z7 (Staphylococcus phage G1) Explore Q4Z9Z7  Go to UniProtKB:  Q4Z9Z7

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
DUF4815 domain-containing protein	Q, R, S, T, U, V	1,152	Staphylococcus phage 812	Mutation(s): 0

Entity ID: 7
Molecule	Chains	Sequence Length	Organism	Details	Image
Receptor binding protein	W, X, Y	458	Staphylococcus phage 812	Mutation(s): 0
UniProt
Find proteins for A0A0U1WIJ9 (Staphylococcus phage 812) Explore A0A0U1WIJ9  Go to UniProtKB:  A0A0U1WIJ9

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 4.40 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