3g0r

X-ray diffraction
2.4Å resolution

Complex of Mth0212 and an 8bp dsDNA with distorted ends

Released:

Function and Biology Details

Reactions catalysed:
Exonucleolytic cleavage in the 3'- to 5'-direction to yield nucleoside 5'-phosphates
The C-O-P bond 3' to the apurinic or apyrimidinic site in DNA is broken by a beta-elimination reaction, leaving a 3'-terminal unsaturated sugar and a product with a terminal 5'-phosphate
Biological process:
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
PDBe Complex ID:
PDB-CPX-116260 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
DNA uridine endonuclease Chains: A, B
Molecule details ›
Chains: A, B
Length: 265 amino acids
Theoretical weight: 31.43 KDa
Source organism: Methanothermobacter thermautotrophicus str. Delta H
Expression system: Escherichia coli
UniProt:
  • Canonical: O26314 (Residues: 1-257; Coverage: 100%)
Gene name: MTH_212
Sequence domains: Endonuclease/Exonuclease/phosphatase family
Structure domains: Endonuclease/exonuclease/phosphatase
5'-D(*GP*CP*TP*GP*CP*GP*CP*AP*GP*GP*GP*CP*G)-3' Chain: G
Molecule details ›
Chain: G
Length: 13 nucleotides
Theoretical weight: 4.03 KDa
Source organism: Methanothermobacter thermautotrophicus str. Delta H
Expression system: Not provided
5'-D(*CP*CP*CP*TP*GP*UP*GP*CP*AP*GP*C)-3' Chain: K
Molecule details ›
Chain: K
Length: 11 nucleotides
Theoretical weight: 3.3 KDa
Source organism: Methanothermobacter thermautotrophicus str. Delta H
Expression system: Not provided

Ligands and Environments

3 bound ligands:
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: EMBL/DESY, HAMBURG BEAMLINE X12
Spacegroup: P21
Unit cell:
a: 44.751Å b: 80.76Å c: 105.211Å
α: 90° β: 94.03° γ: 90°
R-values:
R R work R free
0.181 0.178 0.243
Expression systems:
  • Escherichia coli
  • Not provided