8D9H

gRAMP-TPR-CHAT match PFS target RNA(Craspase)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Craspase is a CRISPR RNA-guided, RNA-activated protease.

Hu, C.van Beljouw, S.P.B.Nam, K.H.Schuler, G.Ding, F.Cui, Y.Rodriguez-Molina, A.Haagsma, A.C.Valk, M.Pabst, M.Brouns, S.J.J.Ke, A.

(2022) Science 377: 1278-1285

  • DOI: https://doi.org/10.1126/science.add5064
  • Primary Citation of Related Structures:  
    8D8N, 8D97, 8D9E, 8D9F, 8D9G, 8D9H, 8D9I

  • PubMed Abstract: 

    The CRISPR-Cas type III-E RNA-targeting effector complex gRAMP/Cas7-11 is associated with a caspase-like protein (TPR-CHAT/Csx29) to form Craspase (CRISPR-guided caspase). Here, we use cryo-electron microscopy snapshots of Craspase to explain its target RNA cleavage and protease activation mechanisms. Target-guide pairing extending into the 5' region of the guide RNA displaces a gating loop in gRAMP, which triggers an extensive conformational relay that allosterically aligns the protease catalytic dyad and opens an amino acid side-chain-binding pocket. We further define Csx30 as the endogenous protein substrate that is site-specifically proteolyzed by RNA-activated Craspase. This protease activity is switched off by target RNA cleavage by gRAMP and is not activated by RNA targets containing a matching protospacer flanking sequence. We thus conclude that Craspase is a target RNA-activated protease with self-regulatory capacity.


  • Organizational Affiliation

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


Macromolecules

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
RAMP superfamily proteinA [auth B]1,270Candidatus 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 proteinD [auth E]666Candidatus 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
RNA (36-MER)B [auth C]36Candidatus Scalindua brodae
Sequence Annotations
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  • Reference Sequence

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Entity ID: 3
MoleculeChains LengthOrganismImage
RNA (5'-R(P*UP*CP*CP*GP*GP*GP*GP*CP*AP*GP*AP*AP*AP*AP*UP*UP*GP*GP*GP*U)-3')C [auth D]20Candidatus Scalindua brodae
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM118174

Revision History  (Full details and data files)

  • Version 1.0: 2023-06-14
    Type: Initial release