› 4i2d

X-ray diffraction
2.3Å resolution

Binary complex of mouse TdT with AMPcPP

Released:
DOI: 10.2210/pdb4i2d/pdb
PDB entry 4i2d coloured by chain, front view.
PDB entry 4i2d coloured by chain, side view.
PDB entry 4i2d coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
Structures of intermediates along the catalytic cycle of terminal deoxynucleotidyltransferase: dynamical aspects of the two-metal ion mechanism.
Gouge J, Rosario S, Romain F, Beguin P, Delarue M
J Mol Biol 425 4334-52 (2013)
PMID: 23856622

Function and Biology Details

Reaction catalysed: 
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-140763 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
DNA nucleotidylexotransferase Chain: A
Molecule details ›
Chain: A
Length: 400 amino acids
Theoretical weight: 45.7 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: P09838 (Residues: 132-510; Coverage: 74%)
Gene names: Dntt, Tdt
Sequence domains:
Structure domains:

Ligands and Environments

4 bound ligands:
Ligand MG 1 x MG
Ligand NA 1 x NA
Ligand APC 1 x APC
Ligand ZN 1 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SOLEIL BEAMLINE PROXIMA 1
Spacegroup: P212121
Unit cell:
a: 46.88Å b: 84.47Å c: 113.91Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.203 0.201 0.236
Expression system: Escherichia coli

Quick links

Citations

3 review citations

Structure and function relationships in mammalian DNA polymerases.
Hoitsma et al. (2020)
2 more