› 2ofi

X-ray diffraction
1.85Å resolution

Crystal Structure of 3-methyladenine DNA Glycosylase I (TAG) bound to DNA/3mA

Released:
DOI: 10.2210/pdb2ofi/pdb
PDB entry 2ofi coloured by chain, front view.
PDB entry 2ofi coloured by chain, side view.
PDB entry 2ofi coloured by chain, top view.
Source organisms:
Primary publication:
DNA damage recognition and repair by 3-methyladenine DNA glycosylase I (TAG).
Metz AH, Hollis T, Eichman BF
EMBO J 26 2411-20 (2007)
PMID: 17410210

Function and Biology Details

Reaction catalysed: 
Hydrolysis of alkylated DNA, releasing 3-methyladenine
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-115731 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
3-methyladenine DNA glycosylase I, constitutive Chain: A
Molecule details ›
Chain: A
Length: 184 amino acids
Theoretical weight: 21.11 KDa
Source organism: Salmonella enterica subsp. enterica serovar Typhi
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8Z2A5 (Residues: 1-184; Coverage: 95%)
Gene names: CAJ76_00885, CAJ80_00405, CAL67_00245, CB224_00605, CC884_01545, CC907_00250, CC972_01275, D4Z37_03335, D6Q30_05880, DKA88_00265, DNM71_00915, DNV09_00265, DS261_00915, DUQ91_00915, DUV11_00915, DVG36_00265, EBC38_00940, EID90_00270, ELQ62_00260, EU445_00905, EVI00_03490, F9R11_03430, F9Y21_03390, FI137_10725, G2227_03345, G2244_00905, G3982_000052, G3V49_000049, G4I71_000098, G4L28_001120, G4P30_000179, G4Y41_000076, G4Y55_000664, G9264_000049, G9C68_000537, G9X37_000032, GDI29_03430, GND71_000179, K3U68_18870, STY4160, ZZ17_00290, t3877, tag
Sequence domains: Methyladenine glycosylase
Structure domains: Hypothetical protein; domain 2
5'-D(*CP*GP*GP*AP*CP*TP*(3DR)P*AP*CP*GP*GP*G)-3' Chain: C
Molecule details ›
Chain: C
Length: 12 nucleotides
Theoretical weight: 3.61 KDa
Source organism: Synthetic construct
Expression system: Not provided
5'-D(*CP*CP*GP*TP*TP*AP*GP*TP*CP*CP*GP*C)-3' Chain: B
Molecule details ›
Chain: B
Length: 12 nucleotides
Theoretical weight: 3.58 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

3 bound ligands:
Ligand ZN 1 x ZN
Ligand NA 1 x NA
Ligand ADK 1 x ADK
1 modified residue:
Ligand MSE 5 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-ID
Spacegroup: P63
Unit cell:
a: 101.963Å b: 101.963Å c: 55.461Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.177 0.176 0.198
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

5 review citations

Base excision repair.
Krokan et al. (2013)
4 more

4 mentions without citation

Detection of damaged DNA bases by DNA glycosylase enzymes.
Friedman et al. (2010)
3 more