› 7cpw

X-ray diffraction
2.85Å resolution

Complex structure of DNA with self-catalyzed depurination activity

Released:
DOI: 10.2210/pdb7cpw/pdb
PDB entry 7cpw coloured by chain, front view.
PDB entry 7cpw coloured by chain, side view.
PDB entry 7cpw coloured by chain, top view.
Source organisms:
Primary publication:
Crystallization and Structural Determination of 8-17 DNAzyme.
Liu H, Mao S, Sheng J, Gan J
Methods Mol Biol 2439 117-130 (2022)
PMID: 35226319

Function and Biology Details

Reaction catalysed: 
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-121166 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (2 distinct):
Repair DNA polymerase X Chains: A, B
Molecule details ›
Chains: A, B
Length: 178 amino acids
Theoretical weight: 20.61 KDa
Source organism: African swine fever virus
Expression system: Escherichia coli
UniProt:
  • Canonical: P42494 (Residues: 1-174; Coverage: 100%)
Gene names: Ba71V-97, O174L
Sequence domains:
DNA (5'-D(*CP*GP*TP*GP*AP*TP*CP*GP*GP*AP*GP*AP*CP*GP*AP*TP*CP*AP*CP*G)-3') Chains: a, b
Molecule details ›
Chains: a, b
Length: 20 nucleotides
Theoretical weight: 6.18 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NFPSS BEAMLINE BL19U1
Spacegroup: P2221
Unit cell:
a: 51.049Å b: 64.544Å c: 172.673Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.199 0.196 0.255
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

1 citations in other articles

Structure of a 10-23 deoxyribozyme exhibiting a homodimer conformation.
Cramer et al. (2023)