› 5o6u

X-ray diffraction
3.25Å resolution

Structure of the Cascade-I-Fv R-loop complex from Shewanella putrefaciens

Released:
DOI: 10.2210/pdb5o6u/pdb
PDB entry 5o6u coloured by chain, front view.
PDB entry 5o6u coloured by chain, side view.
PDB entry 5o6u coloured by chain, top view.
Source organism: Shewanella putrefaciens CN-32
Primary publication:
Structural Variation of Type I-F CRISPR RNA Guided DNA Surveillance.
Pausch P, Müller-Esparza H, Gleditzsch D, Altegoer F, Randau L, Bange G
Mol Cell 67 622-632.e4 (2017)
PMID: 28781236

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero octamer (preferred)
PDBe Complex ID:
PDB-CPX-107498 (preferred)
Entry contents:
3 distinct polypeptide molecules
2 distinct DNA molecules
1 distinct RNA molecule
Macromolecules (6 distinct):
CRISPR-associated protein, Csy4 family Chain: B
Molecule details ›
Chain: B
Length: 182 amino acids
Theoretical weight: 20.57 KDa
Source organism: Shewanella putrefaciens CN-32
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A4Y6G3 (Residues: 2-183; Coverage: 100%)
Gene name: Sputcn32_1823
Sequence domains: CRISPR-associated protein (Cas_Csy4)
Structure domains: CRISPR-associated endoribonuclease Cas6/Csy4
Uncharacterized protein Chains: C, D, E
Molecule details ›
Chains: C, D, E
Length: 315 amino acids
Theoretical weight: 35.6 KDa
Source organism: Shewanella putrefaciens CN-32
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A4Y6G1 (Residues: 1-315; Coverage: 100%)
Gene name: Sputcn32_1821
Cas5fv helical domain-containing protein Chain: F
Molecule details ›
Chain: F
Length: 336 amino acids
Theoretical weight: 37.9 KDa
Source organism: Shewanella putrefaciens CN-32
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A4Y6G2 (Residues: 1-336; Coverage: 100%)
Gene name: Sputcn32_1822
Sequence domains: Cas5fv helical domain
non-target DNA Chain: H
Molecule details ›
Chain: H
Length: 21 nucleotides
Theoretical weight: 6.31 KDa
target DNA Chain: I
Molecule details ›
Chain: I
Length: 27 nucleotides
Theoretical weight: 8.49 KDa
crRNA Chain: A
Molecule details ›
Chain: A
Length: 43 nucleotides
Theoretical weight: 13.76 KDa

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID29
Spacegroup: P3221
Unit cell:
a: 143.316Å b: 143.316Å c: 172.698Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.254 0.252 0.286
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

9 review citations

Phage-Encoded Anti-CRISPR Defenses.
Stanley et al. (2018)
8 more

1 mention without citation

PAM identification by CRISPR-Cas effector complexes: diversified mechanisms and structures.
Gleditzsch et al. (2019)