8K27 | pdb_00008k27

ICP1 Csy-dsDNA complex (partial duplex)

• PDB DOI: https://doi.org/10.2210/pdb8K27/pdb
• EM Map EMD-36830: EMDB EMDataResource
• NAKB: 8K27

• Classification: RNA BINDING PROTEIN/DNA/RNA
• Organism(s): Vibrio phage ICP1_2004_A
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-07-12 Released: 2024-07-17 
• Deposition Author(s): Zhang, L.X., Feng, Y.
• Funding Organization(s): National Science Foundation (NSF, China)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.60 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structure of csy complex with short DNA

Zhang, L.X., Feng, Y.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 9-mer - A6B1C1D1 Local Symmetry: Helical - H  (Explore in 3D)
Local Stoichiometry: Homo 6-mer - A6 

Local Symmetry: Helical - H  (Explore in 3D)
Local Stoichiometry: Homo 6-mer - A6 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 308.9 kDa 
• Atom Count: 21,183 
• Modeled Residue Count: 2,530 
• Deposited Residue Count: 2,565 
• Unique protein chains: 4
• Unique nucleic acid chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Csy1	A	179	Vibrio phage ICP1_2004_A	Mutation(s): 0  Gene Names: TUST1-10_00450
UniProt
Find proteins for A0ACD6B8J6 (Vibrio phage ICP1_2004_A) Explore A0ACD6B8J6  Go to UniProtKB:  A0ACD6B8J6

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Csy2	B	248	Vibrio phage ICP1_2004_A	Mutation(s): 0  Gene Names: TUST1-10_00445
UniProt
Find proteins for A0ACD6B8J5 (Vibrio phage ICP1_2004_A) Explore A0ACD6B8J5  Go to UniProtKB:  A0ACD6B8J5

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Csy3	C [auth D], G [auth C], H [auth G], I [auth F], J [auth E], K [auth H]	306	Vibrio phage ICP1_2004_A	Mutation(s): 0  Gene Names: TUST1-10_00440
UniProt
Find proteins for A0ACD6B8J4 (Vibrio phage ICP1_2004_A) Explore A0ACD6B8J4  Go to UniProtKB:  A0ACD6B8J4

Entity ID: 7
Molecule	Chains	Sequence Length	Organism	Details	Image
Csy4	L [auth I]	168	Vibrio phage ICP1_2004_A	Mutation(s): 0  Gene Names: TUST1-10_00435
UniProt
Find proteins for A0ACD6B8J3 (Vibrio phage ICP1_2004_A) Explore A0ACD6B8J3  Go to UniProtKB:  A0ACD6B8J3

Entity ID: 4
Molecule	Chains	Length	Organism	Image
RNA (60-MER)	D [auth P]	60	Vibrio phage ICP1_2004_A

Entity ID: 5
Molecule	Chains	Length	Organism	Image
DNA (49-MER)	E [auth Q]	49	Vibrio phage ICP1_2004_A

Entity ID: 6
Molecule	Chains	Length	Organism	Image
DNA (25-MER)	F [auth R]	25	Vibrio phage ICP1_2004_A

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.60 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-07-17 
Deposition Author(s): Zhang, L.X., Feng, Y.

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Funding Organization	Location	Grant Number
National Science Foundation (NSF, China)	China	32171274

Revision History  

• Version 1.0: 2024-07-17
  Type: Initial release
  
• Version 1.1: 2024-10-16
  Changes: Data collection, Structure summary