5VVK

Cas1-Cas2 bound to full-site mimic


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.217 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structures of the CRISPR genome integration complex.

Wright, A.V.Liu, J.J.Knott, G.J.Doxzen, K.W.Nogales, E.Doudna, J.A.

(2017) Science 357: 1113-1118

  • DOI: 10.1126/science.aao0679
  • Primary Citation of Related Structures:  5VVJ, 5VVL, 5WFE

  • PubMed Abstract: 
  • CRISPR-Cas systems depend on the Cas1-Cas2 integrase to capture and integrate short foreign DNA fragments into the CRISPR locus, enabling adaptation to new viruses. We present crystal structures of Cas1-Cas2 bound to both donor and target DNA in inte ...

    CRISPR-Cas systems depend on the Cas1-Cas2 integrase to capture and integrate short foreign DNA fragments into the CRISPR locus, enabling adaptation to new viruses. We present crystal structures of Cas1-Cas2 bound to both donor and target DNA in intermediate and product integration complexes, as well as a cryo-electron microscopy structure of the full CRISPR locus integration complex, including the accessory protein IHF (integration host factor). The structures show unexpectedly that indirect sequence recognition dictates integration site selection by favoring deformation of the repeat and the flanking sequences. IHF binding bends the DNA sharply, bringing an upstream recognition motif into contact with Cas1 to increase both the specificity and efficiency of integration. These results explain how the Cas1-Cas2 CRISPR integrase recognizes a sequence-dependent DNA structure to ensure site-selective CRISPR array expansion during the initial step of bacterial adaptive immunity.


    Organizational Affiliation

    Department of Molecular and Cell Biology, University of California, Berkeley, Berkeley, CA 94720, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
CRISPR-associated endonuclease Cas1
A, B, C, D
308Escherichia coli (strain K12)Gene Names: ygbT (cas1)
EC: 3.1.-.-
Find proteins for Q46896 (Escherichia coli (strain K12))
Go to UniProtKB:  Q46896
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
CRISPR-associated endoribonuclease Cas2
E, F
94Escherichia coli (strain K12)Gene Names: ygbF (cas2)
EC: 3.1.-.-
Find proteins for P45956 (Escherichia coli (strain K12))
Go to UniProtKB:  P45956
Entity ID: 3
MoleculeChainsLengthOrganism
DNA (5'-D(*GP*CP*CP*CP*CP*AP*GP*TP*AP*GP*C)-3')G11synthetic construct
Entity ID: 4
MoleculeChainsLengthOrganism
DNA (5'-D(*GP*AP*CP*CP*AP*CP*CP*AP*GP*TP*G)-3')H11synthetic construct
Entity ID: 5
MoleculeChainsLengthOrganism
DNA (58-MER)J58synthetic construct
Entity ID: 6
MoleculeChainsLengthOrganism
DNA (58-MER)K58synthetic construct
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.217 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 74.900α = 90.00
b = 197.612β = 112.70
c = 95.344γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
Aimlessdata scaling
XDSdata reduction
PHENIXrefinement
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationCountryGrant Number
National Science Foundation (United States)United States1244557

Revision History 

  • Version 1.0: 2017-08-02
    Type: Initial release
  • Version 1.1: 2017-09-27
    Type: Database references