› 2vkq

X-ray diffraction
2.5Å resolution

Crystal structure of human cytosolic 5'-nucleotidase III (cN-III, NT5C3) in complex with beryllium trifluoride

Released:
DOI: 10.2210/pdb2vkq/pdb
PDB entry 2vkq coloured by chain, front view.
PDB entry 2vkq coloured by chain, side view.
PDB entry 2vkq coloured by chain, top view.
Source organism: Homo sapiens
Entry authors: Wallden K, Moche M, Arrowsmith CH, Berglund H, Busam R, Collins R, Dahlgren LG, Edwards A, Flodin S, Flores A, Graslund S, Hammarstrom M, Herman MD, Johansson A, Johansson I, Kallas A, Karlberg T, Kotenyova T, Lehtio L, Nilsson ME, Nyman T, Persson C, Sagemark J, Thorsell AG, Tresaugues L, van den Berg S, Weigelt J, Welin M, Nordlund P, Structural Genomics Consortium (SGC)

Function and Biology Details

Reactions catalysed: 
A 5'-ribonucleotide + H(2)O = a ribonucleoside + phosphate
CMP + H(2)O = cytidine + phosphate
Biochemical function:
Biological process:
  • not assigned
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-190485 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Cytosolic 5'-nucleotidase 3A Chain: A
Molecule details ›
Chain: A
Length: 292 amino acids
Theoretical weight: 33.2 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9H0P0 (Residues: 61-336; Coverage: 82%)
Gene names: HSPC233, NT5C3, NT5C3A, P5N1, UMPH1
Sequence domains: Pyrimidine 5'-nucleotidase (UMPH-1)
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand BEF 1 x BEF
Ligand MG 1 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-4
Spacegroup: C2221
Unit cell:
a: 88.265Å b: 99.388Å c: 78.041Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.211 0.21 0.242
Expression system: Escherichia coli BL21(DE3)

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