4TVX

Crystal structure of the E. coli CRISPR RNA-guided surveillance complex, Cascade

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.24 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.234 
  • R-Value Observed: 0.234 

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This is version 1.7 of the entry. See complete history. 


Literature

Structural biology. Crystal structure of the CRISPR RNA-guided surveillance complex from Escherichia coli.

Jackson, R.N., Golden, S.M., van Erp, P.B., Carter, J., Westra, E.R., Brouns, S.J., van der Oost, J., Terwilliger, T.C., Read, R.J., Wiedenheft, B.

(2014) Science 345: 1473-1479

  • DOI: https://doi.org/10.1126/science.1256328
  • Primary Citation of Related Structures:  
    4TVX

  • PubMed Abstract: 

    • Clustered regularly interspaced short palindromic repeats (CRISPRs) are essential components of RNA-guided adaptive immune systems that protect bacteria and archaea from viruses and plasmids. In Escherichia coli, short CRISPR-derived RNAs (crRNAs) assemble into a 405-kilodalton multisubunit surveillance complex called Cascade (CRISPR-associated complex for antiviral defense) ...

    Clustered regularly interspaced short palindromic repeats (CRISPRs) are essential components of RNA-guided adaptive immune systems that protect bacteria and archaea from viruses and plasmids. In Escherichia coli, short CRISPR-derived RNAs (crRNAs) assemble into a 405-kilodalton multisubunit surveillance complex called Cascade (CRISPR-associated complex for antiviral defense). Here we present the 3.24 angstrom resolution x-ray crystal structure of Cascade. Eleven proteins and a 61-nucleotide crRNA assemble into a seahorse-shaped architecture that binds double-stranded DNA targets complementary to the crRNA-guide sequence. Conserved sequences on the 3' and 5' ends of the crRNA are anchored by proteins at opposite ends of the complex, whereas the guide sequence is displayed along a helical assembly of six interwoven subunits that present five-nucleotide segments of the crRNA in pseudo-A-form configuration. The structure of Cascade suggests a mechanism for assembly and provides insights into the mechanisms of target recognition.

    Organizational Affiliation: 

    Department of Microbiology and Immunology, Montana State University, Bozeman, MT 59717, USA. bwiedenheft@gmail.com.



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
CRISPR system Cascade subunit CasBA [auth W],
B [auth V],
C [auth K],
D [auth J]		165Escherichia coli K-12Mutation(s): 0 
Gene Names: casB, cse2, ygcK, b2759, JW2729
UniProt
Find proteins for P76632 (Escherichia coli (strain K12))
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Go to UniProtKB:  P76632
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UniProt GroupP76632
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
CRISPR system Cascade subunit CasC363Escherichia coli K-12Mutation(s): 0 
Gene Names: casC, cas4, cse4, ygcJ, b2758, JW2728
UniProt
Find proteins for Q46899 (Escherichia coli (strain K12))
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UniProt GroupQ46899
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
CRISPR system Cascade subunit CasEK [auth A],
T [auth M]		199Escherichia coli K-12Mutation(s): 0 
Gene Names: casE, cas6e, ygcH, b2756, JW2726
EC: 3.1
UniProt
Find proteins for Q46897 (Escherichia coli (strain K12))
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UniProt GroupQ46897
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
CRISPR system Cascade subunit CasDL [auth H],
S [auth T]		224Escherichia coli K-12Mutation(s): 0 
Gene Names: casD, cas5, ygcI, b2757, JW5844
UniProt
Find proteins for Q46898 (Escherichia coli (strain K12))
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UniProt GroupQ46898
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
CRISPR system Cascade subunit CasAW [auth U],
X [auth I]		502Escherichia coli K-12Mutation(s): 0 
Gene Names: casA, cse1, ygcL, b2760, JW2730
UniProt
Find proteins for Q46901 (Escherichia coli (strain K12))
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UniProt GroupQ46901
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Entity ID: 5
MoleculeChainsLengthOrganismImage
Escherichia coli strain ECOR44 cluster 1 CRISPR regionU [auth L],
V [auth X]		61Escherichia coli
Protein Feature View
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Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN
Download Ideal Coordinates CCD File 
Y [auth U],
Z [auth I]		ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N		 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.24 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.234 
  • R-Value Observed: 0.234 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 200.851α = 90
b = 214.541β = 90
c = 217.383γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement

Structure Validation

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Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesP20 GM103500
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR01GM108888
National Science Foundation (NSF, United States)United StatesEPS-110134
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesF32 GM108436

Revision History  (Full details and data files)

  • Version 1.0: 2014-08-13
    Type: Initial release
  • Version 1.1: 2014-08-20
    Changes: Derived calculations, Other
  • Version 1.2: 2014-08-27
    Changes: Database references
  • Version 1.3: 2014-10-01
    Changes: Database references
  • Version 1.4: 2014-12-10
    Changes: Other
  • Version 1.5: 2017-09-06
    Changes: Author supporting evidence, Database references, Derived calculations, Source and taxonomy
  • Version 1.6: 2019-11-27
    Changes: Author supporting evidence
  • Version 1.7: 2022-03-23
    Changes: Author supporting evidence, Database references, Refinement description