5WQE

Crystal structure of Alicyclobacillus acidoterrestris C2c1 in complex with single-guide RNA at 3.1 Angstrom resolution


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.126 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.238 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

C2c1-sgRNA Complex Structure Reveals RNA-Guided DNA Cleavage Mechanism

Liu, L.Chen, P.Wang, M.Li, X.Wang, J.Yin, M.Wang, Y.

(2017) Mol. Cell 65: 310-322

  • DOI: 10.1016/j.molcel.2016.11.040

  • PubMed Abstract: 
  • C2c1 is a type V-B CRISPR-Cas system dual-RNA-guided DNA endonuclease. Here, we report the crystal structure of Alicyclobacillus acidoterrestris C2c1 in complex with a chimeric single-molecule guide RNA (sgRNA). AacC2c1 exhibits a bi-lobed architectu ...

    C2c1 is a type V-B CRISPR-Cas system dual-RNA-guided DNA endonuclease. Here, we report the crystal structure of Alicyclobacillus acidoterrestris C2c1 in complex with a chimeric single-molecule guide RNA (sgRNA). AacC2c1 exhibits a bi-lobed architecture consisting of a REC and NUC lobe. The sgRNA scaffold forms a tetra-helical structure, distinct from previous predictions. The crRNA is located in the central channel of C2c1, and the tracrRNA resides in an external surface groove. Although AacC2c1 lacks a PAM-interacting domain, our analysis revealed that the PAM duplex has a similar binding position found in Cpf1. Importantly, C2c1-sgRNA system is highly sensitive to single-nucleotide mismatches between guide RNA and target DNA. The resulting reduction in off-target cleavage renders C2c1 a valuable addition to the current arsenal of genome-editing tools. Together, our findings indicate that sgRNA assembly is achieved through a mechanism distinct from that reported previously for Cas9 or Cpf1 endonucleases.


    Organizational Affiliation

    Key Laboratory of RNA Biology, CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing 100101, China.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
CRISPR-associated endonuclease C2c1
A
1137Alicyclobacillus acidoterrestris (strain ATCC 49025 / DSM 3922 / CIP 106132 / NCIMB 13137 / GD3B)Gene Names: c2c1
EC: 3.1.-.-
Find proteins for T0D7A2 (Alicyclobacillus acidoterrestris (strain ATCC 49025 / DSM 3922 / CIP 106132 / NCIMB 13137 / GD3B))
Go to UniProtKB:  T0D7A2
Entity ID: 2
MoleculeChainsLengthOrganism
RNA (60-MER)B112Alicyclobacillus acidoterrestris ATCC 49025
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.126 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.238 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 194.554α = 90.00
b = 129.836β = 110.00
c = 84.001γ = 90.00
Software Package:
Software NamePurpose
PHENIXphasing
HKL-2000data processing
HKL-2000data scaling
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data

  • Deposited Date: 2016-11-26 
  • Released Date: 2017-01-25 
  • Deposition Author(s): Liu, L., Wang, Y.L.

Funding OrganizationCountryGrant Number
National Natural Science Foundation of ChinaChina91440201
National Natural Science Foundation of ChinaChina31571335
National Natural Science Foundation of ChinaChina31400640
Ministry of Science and Technology (China)China2014CB910102
Strategic Priority Research Program of the Chinese Academy of SciencesChinaXDB08010203

Revision History 

  • Version 1.0: 2017-01-25
    Type: Initial release
  • Version 1.1: 2017-02-01
    Type: Database references
  • Version 1.2: 2017-10-18
    Type: Author supporting evidence