8WFN | pdb_00008wfn

Cryo-EM structure of DSR2-TTP

• PDB DOI: https://doi.org/10.2210/pdb8WFN/pdb
• EM Map EMD-37497: EMDB EMDataResource

• Classification: ANTIVIRAL PROTEIN
• Organism(s): Bacillus subtilis
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-09-19 Released: 2024-05-01 
• Deposition Author(s): Zhang, H., Li, Z., Li, X.Z.
• Funding Organization(s): Other government

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 4.48 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cryo-EM structure of DSR2-TTP

Zhang, H., Li, Z., Li, X.Z.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 8-mer - A2B2C2D1E1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 8-mer - A3B2C1D1E1 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Hetero 6-mer - A2B2C2 

Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Hetero 6-mer - A2B2C2 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 591.32 kDa 
• Atom Count: 29,532 
• Modeled Residue Count: 3,573 
• Deposited Residue Count: 5,076 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
SIR2-like domain-containing protein	A, B, E, G	1,005	Bacillus subtilis	Mutation(s): 0  Gene Names: B4122_2870 EC: 3.2.2.5
UniProt
Find proteins for P0DXN8 (Bacillus subtilis) Explore P0DXN8  Go to UniProtKB:  P0DXN8

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
tail tube protein(TTP)	C, D, F, H	264	Bacillus subtilis	Mutation(s): 0  Gene Names: B4122_1986
UniProt
Find proteins for A0AAE9G628 (Bacillus phage SPR) Explore A0AAE9G628  Go to UniProtKB:  A0AAE9G628

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 4.48 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-05-01 
Deposition Author(s): Zhang, H., Li, Z., Li, X.Z.

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Funding Organization	Location	Grant Number
Other government		--

Revision History  

• Version 1.0: 2024-05-01
  Type: Initial release
  
• Version 2.0: 2024-06-05
  Type: Coordinate replacement
  Reason: Model completeness
  Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Polymer sequence, Refinement description, Structure summary
• Version 2.1: 2025-07-02
  Changes: Data collection, Structure summary