› 6opm

X-ray diffraction
3.1Å resolution

Casposase bound to integration product

Released:
DOI: 10.2210/pdb6opm/pdb
PDB entry 6opm coloured by chain, front view.
PDB entry 6opm coloured by chain, side view.
PDB entry 6opm coloured by chain, top view.
Source organism: Methanosarcina mazei
Primary publication:
Casposase structure and the mechanistic link between DNA transposition and spacer acquisition by CRISPR-Cas.
Hickman AB, Kailasan S, Genzor P, Haase AD, Dyda F
Elife 9 (2020)
PMID: 31913120

Function and Biology Details

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

Structure analysis Details

Assemblies composition:
hetero hexamer (preferred)
monomeric
Assembly name:
PDBe Complex ID:
PDB-CPX-101322 (preferred)
Entry contents:
2 distinct polypeptide molecules
1 distinct DNA molecule
Macromolecules (3 distinct):
CRISPR-associated endonuclease Cas1 Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 431 amino acids
Theoretical weight: 49.96 KDa
Source organism: Methanosarcina mazei
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A0F8IEL4 (Residues: 2-405; Coverage: 100%)
Gene names: DKM28_08530, DU30_01425, DU33_00735, DU42_16395, DU43_06520, DU45_00060, DU52_05410, DU56_00015, DU57_15540, DU59_17660, DU64_01200, DU66_03140, DU67_00910, DU68_00045, DU71_17290, DU72_02185, DU87_01695, cas1
Sequence domains: CRISPR associated protein Cas1
unknown Chains: H, J
Molecule details ›
Chains: H, J
Length: 13 amino acids
Theoretical weight: 1.12 KDa
Source organism: Methanosarcina mazei
Expression system: Escherichia coli
DNA 21-mer Chains: E, F
Molecule details ›
Chains: E, F
Length: 21 nucleotides
Theoretical weight: 6.38 KDa

Ligands and Environments

1 bound ligand:
Ligand CA 6 x CA
1 modified residue:
Ligand MSE 40 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-ID
Spacegroup: P43212
Unit cell:
a: 106.39Å b: 106.39Å c: 423.36Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.2 0.198 0.256
Expression system: Escherichia coli

Quick links

Citations

6 review citations

Casposons - silent heroes of the CRISPR-Cas systems evolutionary history.
Smaruj et al. (2023)
5 more

1 mention without citation

Sequence specific integration by the family 1 casposase from Candidatus Nitrosopumilus koreensis AR1.
Wang et al. (2021)