8IP0

Cryo-EM structure of type I-B Cascade bound to a PAM-containing dsDNA target at 3.6 angstrom resolution

• PDB DOI: https://doi.org/10.2210/pdb8IP0/pdb
• NAKB: 8IP0
• EM Map EMD-35629: EMDB EMDataResource

• Classification: RNA BINDING PROTEIN/RNA/DNA
• Organism(s): Synechocystis sp. PCC 6714, synthetic construct
• Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
• Mutation(s): No 


• Deposited: 2023-03-13 Released: 2024-03-20 
• Deposition Author(s): Xiao, Y., Lu, M., Yu, C., Zhang, Y.
• Funding Organization(s): National Natural Science Foundation of China (NSFC), Ministry of Science and Technology (MoST, China)

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Experimental Data Snapshot

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

Literature

Cryo-EM structure of type I-B Cascade bound to a PAM-containing dsDNA target at 3.6 angstrom resolution.

Xiao, Y., Lu, M., Yu, C., Zhang, Y.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 12-mer - A7B3C1D1 

Local Symmetry: Helical - H  (Explore in 3D)
Local Stoichiometry: Homo 7-mer - A7 Local Symmetry: Helical - H  (Explore in 3D)
Local Stoichiometry: Homo 3-mer - B3 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 404.72 kDa 
• Atom Count: 26,526 
• Modelled Residue Count: 3,140 
• Deposited Residue Count: 3,377 
• Unique protein chains: 4
• Unique nucleic acid chains: 4

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Type I-MYXAN CRISPR-associated protein Cmx8	A [auth J]	551	Synechocystis sp. PCC 6714	Mutation(s): 0  Gene Names: D082_50500
UniProt
Find proteins for A0A068N831 (Synechocystis sp. (strain PCC 6714)) Explore A0A068N831  Go to UniProtKB:  A0A068N831

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Type I-MYXAN CRISPR-associated protein Cas5/Cmx5/DevS	B [auth A]	237	Synechocystis sp. PCC 6714	Mutation(s): 0  Gene Names: D082_50520
UniProt
Find proteins for A0A068N1Y0 (Synechocystis sp. (strain PCC 6714)) Explore A0A068N1Y0  Go to UniProtKB:  A0A068N1Y0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Fruiting body developmental protein R-like protein	C [auth B], D [auth C], E [auth D], F [auth N], G [auth O], L [auth H], M [auth I]	301	Synechocystis sp. PCC 6714	Mutation(s): 0  Gene Names: D082_50510
UniProt
Find proteins for A0A068N458 (Synechocystis sp. (strain PCC 6714)) Explore A0A068N458  Go to UniProtKB:  A0A068N458

Entity ID: 8
Molecule	Chains	Sequence Length	Organism	Details	Image
CRISPR associated protein Cas11b	N [auth K], O [auth L], P [auth M]	124	Synechocystis sp. PCC 6714	Mutation(s): 0  Gene Names: D082_50500
UniProt
Find proteins for A0A068N831 (Synechocystis sp. (strain PCC 6714)) Explore A0A068N831  Go to UniProtKB:  A0A068N831

Entity ID: 4
Molecule	Chains	Length	Organism	Image
DNA (5'-D(P*TP*CP*CP*AP*TP*GP*TP*TP*TP*AP*TP*CP*AP*CP*C)-3')	H [auth E]	15	synthetic construct

Entity ID: 5
Molecule	Chains	Length	Organism	Image
RNA (44-MER)	I [auth F]	44	synthetic construct

Entity ID: 6
Molecule	Chains	Length	Organism	Image
DNA (41-MER)	J [auth G]	41	synthetic construct

Entity ID: 7
Molecule	Chains	Length	Organism	Image
DNA (5'-D(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')	K [auth P]	10	synthetic construct

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: 2024-03-20 
Deposition Author(s): Xiao, Y., Lu, M., Yu, C., Zhang, Y.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	31970547
Ministry of Science and Technology (MoST, China)	China	2018YFA0902000

Revision History  

• Version 1.0: 2024-03-20
  Type: Initial release