› 1ynb

X-ray diffraction
1.76Å resolution

crystal structure of genomics APC5600

Released:
DOI: 10.2210/pdb1ynb/pdb
PDB entry 1ynb coloured by chain, front view.
PDB entry 1ynb coloured by chain, side view.
PDB entry 1ynb coloured by chain, top view.
Source organism: Archaeoglobus fulgidus DSM 4304
Entry authors: Dong A, Skarina T, Savchenko A, Pai EF, Joachimiak A, Edwards A, Midwest Center for Structural Genomics (MCSG)

Function and Biology Details

Reaction catalysed: 
A 2'-deoxyribonucleoside 5'-monophosphate + H(2)O = a 2'-deoxyribonucleoside + phosphate
Biochemical function:
Biological process:
  • not assigned
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assemblies composition:
homo trimer (preferred)
homo hexamer
Assembly name:
PDBe Complex ID:
PDB-CPX-128071 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
5'-deoxynucleotidase Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 173 amino acids
Theoretical weight: 19.85 KDa
Source organism: Archaeoglobus fulgidus DSM 4304
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O28840 (Residues: 1-173; Coverage: 100%)
Gene name: AF_1432
Sequence domains: HD domain
Structure domains: Hypothetical protein af1432

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 14-BM-D
Spacegroup: C2
Unit cell:
a: 85.32Å b: 131.41Å c: 58.56Å
α: 90° β: 117.2° γ: 90°
R-values:
R R work R free
0.206 0.206 0.243
Expression system: Escherichia coli BL21(DE3)

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