PDBe 3a46

X-ray diffraction
2.2Å resolution

Crystal structure of MvNei1/THF complex

Released:

Function and Biology Details

Reactions catalysed:
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. 
Hydrolysis of DNA containing ring-opened 7-methylguanine residues, releasing 2,6-diamino-4-hydroxy-5-(N-methyl)formamidopyrimidine. 
Biological process:
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Probable formamidopyrimidine-DNA glycosylase Chains: A, B
Molecule details ›
Chains: A, B
Length: 289 amino acids
Theoretical weight: 33.75 KDa
Source organism: Acanthamoeba polyphaga mimivirus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q5UQ00 (Residues: 1-287; Coverage: 100%)
Gene name: MIMI_L315
Sequence domains:
Structure domains: N-terminal domain of MutM-like DNA repair proteins
DNA Chains: C, E
Molecule details ›
Chains: C, E
Length: 13 nucleotides
Theoretical weight: 4.02 KDa
Source organism: Synthetic construct
Expression system: Not provided
DNA Chains: D, F
Molecule details ›
Chains: D, F
Length: 13 nucleotides
Theoretical weight: 3.78 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:

No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X29A
Spacegroup: P21
Unit cell:
a: 39.513Å b: 121.462Å c: 80.51Å
α: 90° β: 95.5° γ: 90°
R-values:
R R work R free
0.213 0.213 0.261
Expression systems:
  • Escherichia coli
  • Not provided