5U07

CRISPR RNA-guided surveillance complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.8 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure Basis for Directional R-loop Formation and Substrate Handover Mechanisms in Type I CRISPR-Cas System.

Xiao, Y.Luo, M.Hayes, R.P.Kim, J.Ng, S.Ding, F.Liao, M.Ke, A.

(2017) Cell 170: 48-60.e11

  • DOI: 10.1016/j.cell.2017.06.012
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Type I CRISPR systems feature a sequential dsDNA target searching and degradation process, by crRNA-displaying Cascade and nuclease-helicase fusion enzyme Cas3, respectively. Here we present two cryo-EM snapshots of the Thermobifida fusca type I-E Ca ...

    Type I CRISPR systems feature a sequential dsDNA target searching and degradation process, by crRNA-displaying Cascade and nuclease-helicase fusion enzyme Cas3, respectively. Here we present two cryo-EM snapshots of the Thermobifida fusca type I-E Cascade: (1) unwinding 11 bp of dsDNA at the seed-sequence region to scout for sequence complementarity, and (2) further unwinding of the entire protospacer to form a full R-loop. These structures provide the much-needed temporal and spatial resolution to resolve key mechanistic steps leading to Cas3 recruitment. In the early steps, PAM recognition causes severe DNA bending, leading to spontaneous DNA unwinding to form a seed-bubble. The full R-loop formation triggers conformational changes in Cascade, licensing Cas3 to bind. The same process also generates a bulge in the non-target DNA strand, enabling its handover to Cas3 for cleavage. The combination of both negative and positive checkpoints ensures stringent yet efficient target degradation in type I CRISPR-Cas systems.


    Organizational Affiliation

    Department of Molecular Biology and Genetics, Cornell University, 253 Biotechnology Building, Ithaca, NY 14853, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
CRISPR-associated protein, Cse3 family
A
232Thermobifida fusca (strain YX)Mutation(s): 0 
Find proteins for Q47PJ5 (Thermobifida fusca (strain YX))
Go to UniProtKB:  Q47PJ5
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Cse2
B, J
244Thermobifida fusca (strain YX)Mutation(s): 0 
Find proteins for Q47PJ2 (Thermobifida fusca (strain YX))
Go to UniProtKB:  Q47PJ2
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
CRISPR-associated protein, Cse1 family
C
549Thermobifida fusca (strain YX)Mutation(s): 0 
Find proteins for Q47PJ1 (Thermobifida fusca (strain YX))
Go to UniProtKB:  Q47PJ1
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
CRISPR-associated protein, Cse4 family
D, E, F, G, H, I
373Thermobifida fusca (strain YX)Mutation(s): 0 
Find proteins for Q47PJ3 (Thermobifida fusca (strain YX))
Go to UniProtKB:  Q47PJ3
Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
CRISPR-associated protein, Cas5e family
N
254Thermobifida fusca (strain YX)Mutation(s): 0 
Find proteins for Q47PJ4 (Thermobifida fusca (strain YX))
Go to UniProtKB:  Q47PJ4
Entity ID: 5
MoleculeChainsLengthOrganism
crRNAK61Thermobifida fusca YX
Entity ID: 6
MoleculeChainsLengthOrganism
Target StrandM21Thermobifida fusca YX
Entity ID: 8
MoleculeChainsLengthOrganism
Nontarget StrandO13Thermobifida fusca YX
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.8 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
Software Package:
Software NamePurpose
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2017-08-09
    Type: Initial release
  • Version 1.1: 2017-08-16
    Type: Database references
  • Version 1.2: 2018-07-18
    Type: Data collection