7Y83

CryoEM structure of type III-E CRISPR Craspase gRAMP-crRNA in complex with TPR-CHAT protease bound to non-self RNA target


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.93 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structural basis for the non-self RNA-activated protease activity of the type III-E CRISPR nuclease-protease Craspase.

Cui, N.Zhang, J.T.Li, Z.Liu, X.Y.Wang, C.Huang, H.Jia, N.

(2022) Nat Commun 13: 7549-7549

  • DOI: https://doi.org/10.1038/s41467-022-35275-5
  • Primary Citation of Related Structures:  
    7Y80, 7Y81, 7Y82, 7Y83, 7Y84, 7Y85

  • PubMed Abstract: 

    The RNA-targeting type III-E CRISPR-gRAMP effector interacts with a caspase-like protease TPR-CHAT to form the CRISPR-guided caspase complex (Craspase), but their functional mechanism is unknown. Here, we report cryo-EM structures of the type III-E gRAMP crRNA and gRAMP crRNA -TPR-CHAT complexes, before and after either self or non-self RNA target binding, and elucidate the mechanisms underlying RNA-targeting and non-self RNA-induced protease activation. The associated TPR-CHAT adopted a distinct conformation upon self versus non-self RNA target binding, with nucleotides at positions -1 and -2 of the CRISPR-derived RNA (crRNA) serving as a sensor. Only binding of the non-self RNA target activated the TPR-CHAT protease, leading to cleavage of Csx30 protein. Furthermore, TPR-CHAT structurally resembled eukaryotic separase, but with a distinct mechanism for protease regulation. Our findings should facilitate the development of gRAMP-based RNA manipulation tools, and advance our understanding of the virus-host discrimination process governed by a nuclease-protease Craspase during type III-E CRISPR-Cas immunity.


  • Organizational Affiliation

    Department of Biochemistry, School of Medicine, Southern University of Science and Technology, Shenzhen, 518055, China.


Macromolecules

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
RAMP superfamily protein1,728Candidatus Scalindua brodaeMutation(s): 0 
Gene Names: SCABRO_02597
UniProt
Find proteins for A0A0B0EGF3 (Candidatus Scalindua brodae)
Explore A0A0B0EGF3 
Go to UniProtKB:  A0A0B0EGF3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A0B0EGF3
Sequence Annotations
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
CHAT domain protein746Candidatus Scalindua brodaeMutation(s): 0 
Gene Names: SCABRO_02601
UniProt
Find proteins for A0A0B0EKL4 (Candidatus Scalindua brodae)
Explore A0A0B0EKL4 
Go to UniProtKB:  A0A0B0EKL4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A0B0EKL4
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains LengthOrganismImage
crRNA110Candidatus Scalindua brodae
Sequence Annotations
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  • Reference Sequence
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Entity ID: 3
MoleculeChains LengthOrganismImage
non-self RNA56Candidatus Scalindua brodae
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.93 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2022-12-14
    Type: Initial release
  • Version 1.1: 2024-05-08
    Changes: Data collection, Database references