› 5b2p

X-ray diffraction
1.7Å resolution

Crystal structure of Francisella novicida Cas9 in complex with sgRNA and target DNA (TGA PAM)

Released:
DOI: 10.2210/pdb5b2p/pdb
PDB entry 5b2p coloured by chain, front view.
PDB entry 5b2p coloured by chain, side view.
PDB entry 5b2p coloured by chain, top view.
Source organisms:
Primary publication:
Structure and Engineering of Francisella novicida Cas9.
Hirano H, Gootenberg JS, Horii T, Abudayyeh OO, Kimura M, Hsu PD, Nakane T, Ishitani R, Hatada I, Zhang F, Nishimasu H, Nureki O
Cell 164 950-61 (2016)
PMID: 26875867

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-106177 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
1 distinct DNA/RNA hybrid molecule
Macromolecules (4 distinct):
CRISPR-associated endonuclease Cas9 Chain: A
Molecule details ›
Chain: A
Length: 1632 amino acids
Theoretical weight: 191 KDa
Source organism: Francisella tularensis subsp. novicida U112
Expression system: Escherichia coli
UniProt:
  • Canonical: A0Q5Y3 (Residues: 1-1629; Coverage: 100%)
Gene names: FTN_0757, cas9
Sequence domains: CRISPR-associated endonuclease Cas9 alpha-helical lobe
Target DNA Chain: C
Molecule details ›
Chain: C
Length: 30 nucleotides
Theoretical weight: 9.01 KDa
Source organism: Francisella tularensis subsp. novicida
Expression system: Not provided
DNA (5'-D(*TP*GP*AP*TP*AP*TP*CP*GP*G)-3') Chain: D
Molecule details ›
Chain: D
Length: 9 nucleotides
Theoretical weight: 2.77 KDa
Source organism: Francisella tularensis subsp. novicida
Expression system: Not provided
Guide RNA Chain: B
Molecule details ›
Chain: B
Length: 94 nucleotides
Theoretical weight: 30.3 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

6 bound ligands:
Ligand ZN 1 x ZN
Ligand NA 4 x NA
Ligand CL 2 x CL
Ligand CA 17 x CA
Ligand EDO 23 x EDO
Ligand ACT 2 x ACT
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: P21
Unit cell:
a: 81.611Å b: 159.273Å c: 96.674Å
α: 90° β: 106.86° γ: 90°
R-values:
R R work R free
0.181 0.18 0.203
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

104 review citations

Genome editing with CRISPR-Cas nucleases, base editors, transposases and prime editors.
Anzalone et al. (2020)
103 more