› 4ogk

X-ray diffraction
2.4Å resolution

X-ray structure of the uridine phosphorylase from Salmonella typhimurium in complex with thymidine at 2.40 A resolution

Released:
DOI: 10.2210/pdb4ogk/pdb
PDB entry 4ogk coloured by chain, front view.
PDB entry 4ogk coloured by chain, side view.
PDB entry 4ogk coloured by chain, top view.
Source organism: Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
Entry authors: Sotnichenko SE, Lashkov AA, Gabdoulkhakov AG, Mikhailov AM

Function and Biology Details

Reaction catalysed: 
Uridine + phosphate = uracil + alpha-D-ribose 1-phosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-140986 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Uridine phosphorylase Chains: A, B, C, D, E, F
Molecule details ›
Chains: A, B, C, D, E, F
Length: 253 amino acids
Theoretical weight: 27.17 KDa
Source organism: Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A1F6 (Residues: 1-253; Coverage: 100%)
Gene names: STM3968, STMD1.21, udp
Sequence domains: Phosphorylase superfamily
Structure domains: Nucleoside phosphorylase domain

Ligands and Environments

6 bound ligands:
Ligand THM 5 x THM
Ligand IPA 1 x IPA
Ligand EDO 4 x EDO
Ligand PEG 1 x PEG
Ligand PG4 1 x PG4
Ligand K 1 x K
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: BESSY BEAMLINE 14.2
Spacegroup: P61
Unit cell:
a: 89.97Å b: 89.97Å c: 256.56Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.223 0.22 0.236
Expression system: Escherichia coli

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