› 6kdv

X-ray diffraction
3.11Å resolution

Crystal structure of TtCas1-DNA complex

Released:
DOI: 10.2210/pdb6kdv/pdb
PDB entry 6kdv coloured by chain, front view.
PDB entry 6kdv coloured by chain, side view.
PDB entry 6kdv coloured by chain, top view.
Source organisms:
Primary publication:
Crystal structure of Cas1 in complex with branched DNA.
Yang J, Li J, Wang J, Sheng G, Wang M, Zhao H, Yang Y, Wang Y
Sci China Life Sci 63 516-528 (2020)
PMID: 31792780

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-120143 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
CRISPR-associated endonuclease Cas1 2 Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 325 amino acids
Theoretical weight: 36 KDa
Source organism: Thermus thermophilus HB8
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q53WG8 (Residues: 1-325; Coverage: 100%)
Gene names: TTHB193, cas1-2
Sequence domains: CRISPR associated protein Cas1
DNA (5'-D(*GP*AP*GP*TP*CP*GP*AP*TP*GP*CP*TP*GP*GP*TP*TP*TP*TP*TP*TP*TP*TP*TP*T)-3') Chains: E, G
Molecule details ›
Chains: E, G
Length: 23 nucleotides
Theoretical weight: 7.09 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA (5'-D(*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*CP*CP*AP*GP*CP*AP*TP*CP*GP*AP*CP*TP*C)-3') Chains: F, H
Molecule details ›
Chains: F, H
Length: 23 nucleotides
Theoretical weight: 6.94 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

No bound ligands
1 modified residue:
Ligand MSE 20 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-17A
Spacegroup: P21212
Unit cell:
a: 116.547Å b: 201.199Å c: 77.66Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.241 0.239 0.279
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

1 review citation

Structure-based insights into recognition and regulation of SAM-sensing riboswitches.
Zheng et al. (2023)
1 other article