4WNZ

Crystal structure of Pyrococcus furiosus Cmr4 (Cas7)

  • Classification: HYDROLASE
  • Organism(s): Pyrococcus furiosus DSM 3638
  • Expression System: Escherichia coli
  • Mutation(s): No 

  • Deposited: 2014-10-15 Released: 2015-01-14 
  • Deposition Author(s): Zhu, X., Ye, K.
  • Funding Organization(s): Strategic Priority Research Program of the Chinese Academy of Sciences, National Natural Science Foundation of China, National Basic Research Program of China, Ministry of Science and Technology of China

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.228 
  • R-Value Work: 0.197 
  • R-Value Observed: 0.200 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Cmr4 is the slicer in the RNA-targeting Cmr CRISPR complex

Zhu, X.Ye, K.

(2015) Nucleic Acids Res 43: 1257-1267

  • DOI: https://doi.org/10.1093/nar/gku1355
  • Primary Citation of Related Structures:  
    4WNZ

  • PubMed Abstract: 

    Clustered regularly interspaced short palindromic repeat (CRISPR) loci and CRISPR-associated (Cas) proteins form an adaptive immune system that protects prokaryotes against plasmids and viruses. The Cmr complex, a type III-B effector complex, uses the CRISPR RNA (crRNA) as a guide to target RNA. Here, we show that the Cmr complex of Pyrococcus furiosus cleaves RNA at multiple sites that are 6 nt apart and are positioned relative to the 5'-end of the crRNA. We identified Cmr4 as the slicer and determined its crystal structure at 2.8 Å resolution. In the crystal, Cmr4 forms a helical filament that most likely reflects its structural organization in the Cmr complex. The putative active site is located at the inner surface of the filament where the guide and substrate RNA are thought to bind. The filament structure of Cmr4 accounts for multiple periodic cleavage sites on the substrate. Our study provides new insights into the structure and mechanism of the RNA-targeting Cmr complex.


  • Organizational Affiliation

    National Institute of Biological Sciences at Beijing, Beijing 102206, China Department of Biochemistry and Molecular Biology, College of Life Sciences, Beijing Normal University, Beijing 100875, China Key Laboratory of RNA Biology, Institute of Biophysics, Chinese Academy of Sciences, Beijing 100101, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
CRISPR system Cmr subunit Cmr4
A, B
301Pyrococcus furiosus DSM 3638Mutation(s): 0 
Gene Names: cmr4
UniProt
Find proteins for Q8U1S9 (Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1))
Explore Q8U1S9 
Go to UniProtKB:  Q8U1S9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8U1S9
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.228 
  • R-Value Work: 0.197 
  • R-Value Observed: 0.200 
  • Space Group: P 41
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 63.997α = 90
b = 63.997β = 90
c = 195.344γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
PHENIXphasing
PHENIXrefinement

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data

  • Released Date: 2015-01-14 
  • Deposition Author(s): Zhu, X., Ye, K.

Funding OrganizationLocationGrant Number
Strategic Priority Research Program of the Chinese Academy of SciencesChinaXDB08010203
National Natural Science Foundation of ChinaChina31325007
National Basic Research Program of China, Ministry of Science and Technology of ChinaChina2010CB835402

Revision History  (Full details and data files)

  • Version 1.0: 2015-01-14
    Type: Initial release
  • Version 1.1: 2015-02-04
    Changes: Database references