› 5dqu

X-ray diffraction
4.5Å resolution

Crystal Structure of Cas-DNA-10 complex

Released:
DOI: 10.2210/pdb5dqu/pdb
PDB entry 5dqu coloured by chain, front view.
PDB entry 5dqu coloured by chain, side view.
PDB entry 5dqu coloured by chain, top view.
Source organism: Escherichia coli K-12
Primary publication:
Structural and Mechanistic Basis of PAM-Dependent Spacer Acquisition in CRISPR-Cas Systems.
Wang J, Li J, Zhao H, Sheng G, Wang M, Yin M, Wang Y
Cell 163 840-53 (2015)
PMID: 26478180

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero decamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-118585 (preferred)
Entry contents:
2 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (4 distinct):
CRISPR-associated endonuclease Cas1 Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 305 amino acids
Theoretical weight: 33.24 KDa
Source organism: Escherichia coli K-12
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q46896 (Residues: 1-305; Coverage: 100%)
Gene names: JW2725, b2755, cas1, ygbT
Sequence domains: CRISPR associated protein Cas1
CRISPR-associated endoribonuclease Cas2 Chains: E, F
Molecule details ›
Chains: E, F
Length: 94 amino acids
Theoretical weight: 10.53 KDa
Source organism: Escherichia coli K-12
Expression system: Escherichia coli
UniProt:
  • Canonical: P45956 (Residues: 1-94; Coverage: 100%)
Gene names: JW5438, b2754, cas2, ygbF
Sequence domains: CRISPR-associated protein (Cas_Cas2CT1978)
DNA (5'-D(*GP*AP*GP*TP*CP*GP*AP*TP*GP*CP*TP*TP*TP*TP*T)-3') Chains: H, I
Molecule details ›
Chains: H, I
Length: 15 nucleotides
Theoretical weight: 4.61 KDa
DNA (5'-D(P*TP*TP*GP*CP*AP*TP*CP*GP*AP*CP*TP*C)-3') Chains: G, J
Molecule details ›
Chains: G, J
Length: 12 nucleotides
Theoretical weight: 3.61 KDa

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U
Spacegroup: P212121
Unit cell:
a: 71.095Å b: 195.775Å c: 194.716Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.266 0.265 0.287
Expression systems:
  • Escherichia coli BL21(DE3)
  • Escherichia coli

Quick links

Citations

36 review citations

Biology and Applications of CRISPR Systems: Harnessing Nature's Toolbox for Genome Engineering.
Wright et al. (2016)
35 more

3 mentions without citation

Exploiting DNA Endonucleases to Advance Mechanisms of DNA Repair.
Thompson et al. (2021)
2 more