› 2jao

X-ray diffraction
2Å resolution

Crystal structure of D12N variant of mouse cytosolic 5'(3')- deoxyribonucleotidase (cdN) in complex with deoxyguanosine 5'- monophosphate

Released:
DOI: 10.2210/pdb2jao/pdb
PDB entry 2jao coloured by chain, front view.
PDB entry 2jao coloured by chain, side view.
PDB entry 2jao coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
Crystal structures of human and murine deoxyribonucleotidases: insights into recognition of substrates and nucleotide analogues.
Walldén K, Rinaldo-Matthis A, Ruzzenente B, Rampazzo C, Bianchi V, Nordlund P
Biochemistry 46 13809-18 (2007)
PMID: 17985935

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-191648 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
5'(3')-deoxyribonucleotidase, cytosolic type Chain: A
Molecule details ›
Chain: A
Length: 200 amino acids
Theoretical weight: 23.11 KDa
Source organism: Mus musculus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9JM14 (Residues: 1-200; Coverage: 100%)
Gene names: Dnt1, Nt5c
Sequence domains: 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C)
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand GOL 1 x GOL
Ligand DGP 1 x DGP
Ligand MG 1 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: MAX II BEAMLINE I711
Spacegroup: P62
Unit cell:
a: 76.25Å b: 76.25Å c: 85.76Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.167 0.165 0.205
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

11 citation in other articles

Structural basis for the allosteric regulation and substrate recognition of human cytosolic 5'-nucleotidase II.
Walldén et al. (2011)
10 more

2 mentions without citation

Crystal structures of the novel cytosolic 5'-nucleotidase IIIB explain its preference for m7GMP.
Monecke et al. (2014)
1 more