5U07

CRISPR RNA-guided surveillance complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.80 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.3 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:  
    5U07, 5U0A

  • 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 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 ...

    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. Electronic address: ailong.ke@cornell.edu.



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
CRISPR-associated protein, Cse3 familyA232Thermobifida fusca YXMutation(s): 0 
Gene Names: Tfu_1588
UniProt
Find proteins for Q47PJ5 (Thermobifida fusca (strain YX))
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Go to UniProtKB:  Q47PJ5
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UniProt GroupQ47PJ5
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Cse2B, J244Thermobifida fusca YXMutation(s): 0 
Gene Names: Tfu_1591
UniProt
Find proteins for Q47PJ2 (Thermobifida fusca (strain YX))
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Go to UniProtKB:  Q47PJ2
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UniProt GroupQ47PJ2
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
CRISPR-associated protein, Cse1 familyC549Thermobifida fusca YXMutation(s): 0 
Gene Names: Tfu_1592
UniProt
Find proteins for Q47PJ1 (Thermobifida fusca (strain YX))
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Go to UniProtKB:  Q47PJ1
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UniProt GroupQ47PJ1
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
CRISPR-associated protein, Cse4 family
D, E, F, G, H, I
D, E, F, G, H, I
373Thermobifida fusca YXMutation(s): 0 
Gene Names: Tfu_1590
UniProt
Find proteins for Q47PJ3 (Thermobifida fusca (strain YX))
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Go to UniProtKB:  Q47PJ3
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UniProt GroupQ47PJ3
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
CRISPR-associated protein, Cas5e familyM [auth N]254Thermobifida fusca YXMutation(s): 0 
Gene Names: Tfu_1589
UniProt
Find proteins for Q47PJ4 (Thermobifida fusca (strain YX))
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Go to UniProtKB:  Q47PJ4
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UniProt GroupQ47PJ4
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Entity ID: 5
MoleculeChainsLengthOrganismImage
crRNAK 61Thermobifida fusca YX
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Entity ID: 6
MoleculeChainsLengthOrganismImage
Target StrandL [auth M]21Thermobifida fusca YX
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Entity ID: 8
MoleculeChainsLengthOrganismImage
Nontarget StrandN [auth O]13Thermobifida fusca YX
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.80 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2017-08-09
    Type: Initial release
  • Version 1.1: 2017-08-16
    Changes: Database references
  • Version 1.2: 2018-07-18
    Changes: Data collection
  • Version 1.3: 2019-11-06
    Changes: Data collection, Other, Structure summary