7R2K

elongated Cascade complex from type I-A CRISPR-Cas system

• PDB DOI: https://doi.org/10.2210/pdb7R2K/pdb
• EM Map EMD-14245: EMDB EMDataResource
• NAKB: 7R2K

• Classification: ANTIVIRAL PROTEIN
• Organism(s): Pyrococcus furiosus DSM 3638, Escherichia coli
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2022-02-04 Released: 2023-08-16 
• Deposition Author(s): Hu, C., Ni, D., Nam, K.H., Terns, M., Stahlberg, H., Ke, A.
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), Swiss National Science Foundation

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.30 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structural snapshots for an atypic type I CRISPR-Cas system

Ni, D., Hu, C., Nam, K.H., Terns, M., Stahlberg, H., Ke, A.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 21-mer - A10B7C1D1E1F1 

Local Symmetry: Helical - H  (Explore in 3D)
Local Stoichiometry: Homo 10-mer - A10 Local Symmetry: Helical - H  (Explore in 3D)
Local Stoichiometry: Hetero 14-mer - A7B7 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 647.33 kDa 
• Atom Count: 43,931 
• Modelled Residue Count: 5,529 
• Deposited Residue Count: 5,672 
• Unique protein chains: 6
• Unique nucleic acid chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CRISPR-associated helicase Cas3	A	651	Pyrococcus furiosus DSM 3638	Mutation(s): 0  Gene Names: cas3, PFDSM3638_03195
UniProt
Find proteins for A0A5C0XNV5 (Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)) Explore A0A5C0XNV5  Go to UniProtKB:  A0A5C0XNV5

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Cas11a	B [auth C], D [auth E], E [auth F], F [auth G], G [auth H], H [auth I], I [auth J]	108	Pyrococcus furiosus DSM 3638	Mutation(s): 0  Gene Names: PF0643
UniProt
Find proteins for Q8U332 (Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)) Explore Q8U332  Go to UniProtKB:  Q8U332

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Cas7a	J [auth K], K [auth L], L [auth M], M [auth N], N [auth O], O [auth P], Q [auth R], S [auth T], U [auth V], V [auth W]	336	Pyrococcus furiosus DSM 3638	Mutation(s): 0  Gene Names: PF0642
UniProt
Find proteins for Q8U333 (Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)) Explore Q8U333  Go to UniProtKB:  Q8U333

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
CRISPR-associated endonuclease Cas3-HD	P [auth Q]	238	Pyrococcus furiosus DSM 3638	Mutation(s): 0  Gene Names: cas3, cas3'', PF0639 EC: 3.1
UniProt
Find proteins for Q8U336 (Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)) Explore Q8U336  Go to UniProtKB:  Q8U336

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
Type I-A CRISPR-associated protein Cas5	R [auth S]	256	Pyrococcus furiosus DSM 3638	Mutation(s): 0  Gene Names: cas5a, PFDSM3638_03200
UniProt
Find proteins for A0A5C0XNV9 (Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)) Explore A0A5C0XNV9  Go to UniProtKB:  A0A5C0XNV9

Entity ID: 9
Molecule	Chains	Sequence Length	Organism	Details	Image
Cas8	X [auth Y]	341	Pyrococcus furiosus DSM 3638	Mutation(s): 0  Gene Names: PF0637
UniProt
Find proteins for Q8U338 (Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)) Explore Q8U338  Go to UniProtKB:  Q8U338

Entity ID: 3
Molecule	Chains	Length	Organism	Image
DNA (5'-D(P*TP*AP*CP*AP*AP*GP*GP*GP*A)-3')	C [auth D]	9	Escherichia coli

Entity ID: 7
Molecule	Chains	Length	Organism	Image
crRNA (57-MER)	T [auth U]	57	Escherichia coli

Entity ID: 8
Molecule	Chains	Length	Organism	Image
DNA (5'-D(P*TP*CP*CP*C)-3')	W [auth X]	4	Escherichia coli

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NI	Y [auth Q], Z [auth Q]	NICKEL (II) ION Ni VEQPNABPJHWNSG-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.30 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-08-16 
Deposition Author(s): Hu, C., Ni, D., Nam, K.H., Terns, M., Stahlberg, H., Ke, A.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	GM118117
Swiss National Science Foundation	Switzerland	(NCCR) TransCure
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	GM118160

Revision History  

• Version 1.0: 2023-08-16
  Type: Initial release