› 3uby

X-ray diffraction
2Å resolution

Crystal structure of human alklyadenine DNA glycosylase in a lower and higher-affinity complex with DNA

Released:
DOI: 10.2210/pdb3uby/pdb
PDB entry 3uby coloured by chain, front view.
PDB entry 3uby coloured by chain, side view.
PDB entry 3uby coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Searching for DNA lesions: structural evidence for lower- and higher-affinity DNA binding conformations of human alkyladenine DNA glycosylase.
Setser JW, Lingaraju GM, Davis CA, Samson LD, Drennan CL
Biochemistry 51 382-90 (2012)
PMID: 22148158

Function and Biology Details

Reaction catalysed: 
Hydrolysis of alkylated DNA, releasing 3-methyladenine, 3-methylguanine, 7-methylguanine and 7-methyladenine
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-116979 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (2 distinct):
DNA-3-methyladenine glycosylase Chains: A, B
Molecule details ›
Chains: A, B
Length: 219 amino acids
Theoretical weight: 24.31 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P29372 (Residues: 84-298; Coverage: 72%)
Gene names: AAG, ANPG, MID1, MPG
Sequence domains: Methylpurine-DNA glycosylase (MPG)
Structure domains: Methylpurine-DNA glycosylase (MPG)
DNA (5'-D(*GP*AP*CP*AP*TP*GP*(EDC)P*TP*TP*GP*CP*CP*T)-3') Chains: C, D
Molecule details ›
Chains: C, D
Length: 13 nucleotides
Theoretical weight: 3.97 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 12.3.1
Spacegroup: P43
Unit cell:
a: 41.168Å b: 41.168Å c: 262.546Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.222 0.219 0.265
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

3 review citations

Facilitated Diffusion Mechanisms in DNA Base Excision Repair and Transcriptional Activation.
Esadze et al. (2018)
2 more

1 mention without citation

The dipeptidyl peptidase IV inhibitors vildagliptin and K-579 inhibit a phospholipase C: a case of promiscuous scaffolds in proteins.
Chakraborty et al. (2013)