6RJG

Cryo-EM structure of St1Cas9-sgRNA-AcrIIA6-tDNA59-ntPAM complex.


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 1.3 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
Cas 91,121Streptococcus thermophilus DGCC 7710Mutation(s): 0 
Gene Names: cas9CDA68_00396
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
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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
tDNA5959Brussowvirus bv2972
Sequence Annotations
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  • Reference Sequence

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Entity ID: 5
MoleculeChains LengthOrganismImage
ntPAMF [auth G]23Brussowvirus 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 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION3.0

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: 2019-12-18
    Changes: Other
  • Version 1.3: 2020-01-01
    Changes: Database references