› 8iin

X-ray diffraction
1.61Å resolution

Complex form of MsmUdgX H109K mutant and uracil- obtained from uracil DNA (ttUtt) post its cleavage by MsmUdgX H109K

Released:
DOI: 10.2210/pdb8iin/pdb
PDB entry 8iin coloured by chain, front view.
PDB entry 8iin coloured by chain, side view.
PDB entry 8iin coloured by chain, top view.
Source organism: Mycolicibacterium smegmatis MC2 155
Primary publication:
Mutational and structural analyses of UdgX: insights into the active site pocket architecture and its evolution.
Aroli S, Woo EJ, Gopal B, Varshney U
Nucleic Acids Res (2023)
PMID: 37283083

Function and Biology Details

Reaction catalysed: 
Hydrolyzes single-stranded DNA or mismatched double-stranded DNA and polynucleotides, releasing free uracil
Biochemical function:
Biological process:
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-499191 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Type-4 uracil-DNA glycosylase Chain: A
Molecule details ›
Chain: A
Length: 206 amino acids
Theoretical weight: 21.81 KDa
Source organism: Mycolicibacterium smegmatis MC2 155
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A0QP43 (Residues: 2-207; Coverage: 99%)
Gene name: MSMEG_0265
Sequence domains: Uracil DNA glycosylase superfamily

Ligands and Environments

2 bound ligands:
Ligand SF4 1 x SF4
Ligand URA 1 x URA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: BRUKER AXS MICROSTAR
Spacegroup: P21
Unit cell:
a: 36.46Å b: 51.54Å c: 54.86Å
α: 90° β: 104.71° γ: 90°
R-values:
R R work R free
0.162 0.162 0.183
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

1 citations in other articles

Structural and functional coupling in cross-linking uracil-DNA glycosylase UDGX.
Liang et al. (2024)