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 

wwPDB Validation 3D Report Full Report


This is version 1.6 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: 10.1126/science.1256328
  • Primary Citation of Related Structures:  

  • 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) as ...

    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.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
CRISPR system Cascade subunit CasB
W, V, K, J
165Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: casB (cse2, ygcK)
Find proteins for P76632 (Escherichia coli (strain K12))
Go to UniProtKB:  P76632
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
CRISPR system Cascade subunit CasC
F, D, E, C, B, G, R, P, Q, O, N, S
363Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: casC (cas4, cse4, ygcJ)
Find proteins for Q46899 (Escherichia coli (strain K12))
Go to UniProtKB:  Q46899
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
CRISPR system Cascade subunit CasE
A, M
199Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: casE (cas6e, ygcH)
EC: 3.1.-.-
Find proteins for Q46897 (Escherichia coli (strain K12))
Go to UniProtKB:  Q46897
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
CRISPR system Cascade subunit CasD
H, T
224Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: casD (cas5, ygcI)
Find proteins for Q46898 (Escherichia coli (strain K12))
Go to UniProtKB:  Q46898
Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
CRISPR system Cascade subunit CasA
U, I
502Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: casA (cse1, ygcL)
Find proteins for Q46901 (Escherichia coli (strain K12))
Go to UniProtKB:  Q46901
Entity ID: 5
MoleculeChainsLengthOrganism
Escherichia coli strain ECOR44 cluster 1 CRISPR regionL,X61Escherichia coli
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
I, U
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
23G
Query on 23G
L, X
RNA OH 3 prime terminusC10 H13 N5 O10 P2G
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.24 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.234 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 200.851α = 90.00
b = 214.541β = 90.00
c = 217.383γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesP20GM103500
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 NRSAUnited StatesF32GM108436

Revision History 

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