6RJ9

Cryo-EM structure of St1Cas9-sgRNA-tDNA20-AcrIIA6 monomeric assembly.


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.6 of the entry. See complete history


Literature

Cas9 Allosteric Inhibition by the Anti-CRISPR Protein AcrIIA6.

Fuchsbauer, O.Swuec, P.Zimberger, C.Amigues, B.Levesque, S.Agudelo, D.Duringer, A.Chaves-Sanjuan, A.Spinelli, S.Rousseau, G.M.Velimirovic, M.Bolognesi, M.Roussel, A.Cambillau, C.Moineau, S.Doyon, Y.Goulet, A.

(2019) Mol Cell 76: 922

  • DOI: https://doi.org/10.1016/j.molcel.2019.09.012
  • Primary Citation of Related Structures:  
    6RJ9, 6RJA, 6RJD, 6RJG

  • PubMed Abstract: 

    In the arms race against bacteria, bacteriophages have evolved diverse anti-CRISPR proteins (Acrs) that block CRISPR-Cas immunity. Acrs play key roles in the molecular coevolution of bacteria with their predators, use a variety of mechanisms of action, and provide tools to regulate Cas-based genome manipulation. Here, we present structural and functional analyses of AcrIIA6, an Acr from virulent phages, exploring its unique anti-CRISPR action. Our cryo-EM structures and functional data of AcrIIA6 binding to Streptococcus thermophilus Cas9 (St1Cas9) show that AcrIIA6 acts as an allosteric inhibitor and induces St1Cas9 dimerization. AcrIIA6 reduces St1Cas9 binding affinity for DNA and prevents DNA binding within cells. The PAM and AcrIIA6 recognition sites are structurally close and allosterically linked. Mechanistically, AcrIIA6 affects the St1Cas9 conformational dynamics associated with PAM binding. Finally, we identify a natural St1Cas9 variant resistant to AcrIIA6 illustrating Acr-driven mutational escape and molecular diversification of Cas9 proteins.


  • Organizational Affiliation

    Architecture et Fonction des Macromolécules Biologiques, Centre National de la Recherche Scientifique (CNRS), Campus de Luminy, Case 932, 13288 Marseille Cedex 09, France; Architecture et Fonction des Macromolécules Biologiques, Aix-Marseille Université, Campus de Luminy, Case 932, 13288 Marseille Cedex 09, France.


Macromolecules

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
AcrIIA6
A, B
183Streptococcus phage D1811Mutation(s): 0 
Gene Names: D1811_026
UniProt
Find proteins for A0A2U7VKE8 (Streptococcus phage D1811)
Explore A0A2U7VKE8 
Go to UniProtKB:  A0A2U7VKE8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A2U7VKE8
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
CRISPR-associated endonuclease Cas9 11,121Streptococcus thermophilus LMD-9Mutation(s): 0 
Gene Names: cas9-1csn1STER_0709
EC: 3.1
UniProt
Find proteins for Q03LF7 (Streptococcus thermophilus (strain ATCC BAA-491 / LMD-9))
Explore Q03LF7 
Go to UniProtKB:  Q03LF7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ03LF7
Sequence Annotations
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  • Reference Sequence
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Entity ID: 3
MoleculeChains LengthOrganismImage
sgRNA117Streptococcus thermophilus
Sequence Annotations
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  • Reference Sequence

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Entity ID: 4
MoleculeChains LengthOrganismImage
tDNA2020Brussowvirus bv2972
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
French National Research AgencyFrance18-CE11-0016-01

Revision History  (Full details and data files)

  • Version 1.0: 2019-10-02
    Type: Initial release
  • Version 1.1: 2019-10-23
    Changes: Data collection, Database references
  • Version 1.2: 2019-11-06
    Changes: Data collection, Refinement description
  • Version 1.3: 2019-12-18
    Changes: Other
  • Version 1.4: 2020-01-01
    Changes: Database references
  • Version 1.5: 2021-06-30
    Changes: Database references, Source and taxonomy, Structure summary
  • Version 1.6: 2024-05-22
    Changes: Data collection, Database references