9WAE | pdb_00009wae

Cryo-EM structure of helicase DruE in the Druantia anti-phage system elucidates its anti-phage mechanism

• PDB DOI: https://doi.org/10.2210/pdb9WAE/pdb
• EM Map EMD-65815: EMDB EMDataResource

• Classification: HYDROLASE
• Organism(s): Pseudomonas protegens Pf-5
• Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
• Mutation(s): No 


• Deposited: 2025-08-12 Released: 2026-08-26 
• Deposition Author(s): Hou, J., He, Y.X., Gui, L.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.49 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Model: in silico

Literature

Cryo-EM structure of helicase DruE in the Druantia anti-phage system elucidates its anti-phage mechanism

Hou, J., He, Y.X., Gui, L.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 443.28 kDa 
• Atom Count: 30,459 
• Modeled Residue Count: 3,851 
• Deposited Residue Count: 3,940 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Helicase	A, B	1,970	Pseudomonas protegens Pf-5	Mutation(s): 0  Gene Names: PFL_3016
UniProt
Find proteins for Q4KCB1 (Pseudomonas fluorescens (strain ATCC BAA-477 / NRRL B-23932 / Pf-5)) Explore Q4KCB1  Go to UniProtKB:  Q4KCB1

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN (Subject of Investigation/LOI)	C [auth A], D [auth A], E [auth A], F [auth A], G [auth B], H [auth B], I [auth B], J [auth B]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.49 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC
MODEL REFINEMENT	PHENIX	1.21.2_5419

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2026-08-26 
Deposition Author(s): Hou, J., He, Y.X., Gui, L.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	31971422

Revision History  

• Version 1.0: 2026-08-26
  Type: Initial release