Crystal structure of the Type II-C Cas9 enzyme from Actinomyces naeslundii

Experimental Data Snapshot

  • Resolution: 2.20 Å
  • R-Value Free: 0.226 
  • R-Value Work: 0.186 
  • R-Value Observed: 0.188 

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Structures of Cas9 endonucleases reveal RNA-mediated conformational activation.

Jinek, M.Jiang, F.Taylor, D.W.Sternberg, S.H.Kaya, E.Ma, E.Anders, C.Hauer, M.Zhou, K.Lin, S.Kaplan, M.Iavarone, A.T.Charpentier, E.Nogales, E.Doudna, J.A.

(2014) Science 343: 1247997-1247997

  • DOI: https://doi.org/10.1126/science.1247997
  • Primary Citation of Related Structures:  
    4CMP, 4CMQ, 4OGC, 4OGE

  • PubMed Abstract: 

    Type II CRISPR (clustered regularly interspaced short palindromic repeats)-Cas (CRISPR-associated) systems use an RNA-guided DNA endonuclease, Cas9, to generate double-strand breaks in invasive DNA during an adaptive bacterial immune response. Cas9 has been harnessed as a powerful tool for genome editing and gene regulation in many eukaryotic organisms. We report 2.6 and 2.2 angstrom resolution crystal structures of two major Cas9 enzyme subtypes, revealing the structural core shared by all Cas9 family members. The architectures of Cas9 enzymes define nucleic acid binding clefts, and single-particle electron microscopy reconstructions show that the two structural lobes harboring these clefts undergo guide RNA-induced reorientation to form a central channel where DNA substrates are bound. The observation that extensive structural rearrangements occur before target DNA duplex binding implicates guide RNA loading as a key step in Cas9 activation.

  • Organizational Affiliation

    Department of Biochemistry, University of Zurich, CH-8057 Zurich, Switzerland.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
HNH endonuclease domain protein1,101Actinomyces naeslundii str. Howell 279Mutation(s): 0 
Gene Names: HMPREF1129_2620
Find proteins for J3F2B0 (Actinomyces naeslundii (strain ATCC 12104 / DSM 43013 / CCUG 2238 / JCM 8349 / NCTC 10301 / Howell 279))
Explore J3F2B0 
Go to UniProtKB:  J3F2B0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupJ3F2B0
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.20 Å
  • R-Value Free: 0.226 
  • R-Value Work: 0.186 
  • R-Value Observed: 0.188 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 75.415α = 90
b = 133.025β = 96.22
c = 80.69γ = 90
Software Package:
Software NamePurpose
ADSCdata collection
MOSFLMdata reduction
SCALAdata scaling

Structure Validation

View Full Validation Report

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-02-12
    Type: Initial release
  • Version 1.1: 2014-03-12
    Changes: Database references
  • Version 1.2: 2014-03-26
    Changes: Database references
  • Version 1.3: 2024-02-28
    Changes: Data collection, Database references, Derived calculations