8ZP9

Cryo-EM structure of Cas5-HNH Cascade bound with sDNA, Conf2

• PDB DOI: https://doi.org/10.2210/pdb8ZP9/pdb
• NAKB: 8ZP9
• EM Map EMD-60330: EMDB EMDataResource

• Classification: IMMUNE SYSTEM/DNA/RNA
• Organism(s): Escherichia coli, Candidatus Cloacimonetes bacterium ADurb.Bin088
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-05-29 Released: 2024-12-11 
• Deposition Author(s): Liu, Y.N., Wang, L., Zhang, H., Zhu, H.
• Funding Organization(s): Chinese Academy of Sciences

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.80 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cryo-EM structure of Cas5-HNH Cascade bound with sDNA, Conf2

Liu, Y.N., Wang, L., Zhang, H., Zhu, H.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 7-mer - A5B1C1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 7-mer - A6B1 Local Symmetry: Helical - H  (Explore in 3D)
Local Stoichiometry: Homo 5-mer - A5 

Local Symmetry: Helical - H  (Explore in 3D)
Local Stoichiometry: Homo 5-mer - A5 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 332.58 kDa 
• Atom Count: 19,297 
• Modelled Residue Count: 2,391 
• Deposited Residue Count: 2,777 
• Unique protein chains: 2
• Unique nucleic acid chains: 2

Macromolecules

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
CRISPR system Cascade subunit CasC	B [auth F], C [auth H], D [auth I], E [auth J], F [auth K], G	378	Candidatus Cloacimonetes bacterium ADurb.Bin088	Mutation(s): 0  Gene Names: casC, BWX75_00749
UniProt
Find proteins for A0A1V6F8B5 (Candidatus Cloacimonetes bacterium ADurb.Bin088) Explore A0A1V6F8B5  Go to UniProtKB:  A0A1V6F8B5

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
CRISPR system Cascade subunit CasD	H [auth B]	388	Candidatus Cloacimonetes bacterium ADurb.Bin088	Mutation(s): 0  Gene Names: casD, BWX75_00750
UniProt
Find proteins for A0A1V6F8C5 (Candidatus Cloacimonetes bacterium ADurb.Bin088) Explore A0A1V6F8C5  Go to UniProtKB:  A0A1V6F8C5

Entity ID: 1
Molecule	Chains	Length	Organism	Image
RNA (61-MER)	A	61	Escherichia coli

Entity ID: 4
Molecule	Chains	Length	Organism	Image
DNA (60-MER)	I [auth M]	60	Escherichia coli

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.80 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-12-11 
Deposition Author(s): Liu, Y.N., Wang, L., Zhang, H., Zhu, H.

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Funding Organization	Location	Grant Number
Chinese Academy of Sciences	China	--

Revision History  

• Version 1.0: 2024-12-11
  Type: Initial release