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

Experimental Data Snapshot

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

Starting Models: experimental, in silico
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wwPDB Validation 3D Report Full Report

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This is version 1.0 of the entry. See complete history.

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.

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

Find similar proteins by:

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
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A0U1WFD7
Sequence Annotations Expand
Reference Sequence

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

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Entry History

& Funding Information

Deposition Data

Released Date: 2025-04-09

Deposition Author(s):

Pichel-Beleiro, A.

van Raaij, M.J.

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

Revision History (Full details and data files)

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

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.