› 5vjn

X-ray diffraction
1.78Å resolution

Crystal Structure of Adenine Phosphoribosyltransferase from Saccharomyces cerevisiae Complexed with D-2,5-Dideoxy-2,5-Imino-Altritol 1,6-Bisphosphate (D-DIAB) and Adenine

Released:
DOI: 10.2210/pdb5vjn/pdb
PDB entry 5vjn coloured by chain, front view.
PDB entry 5vjn coloured by chain, side view.
PDB entry 5vjn coloured by chain, top view.
Source organism: Saccharomyces cerevisiae
Primary publication:
Synthesis of bis-Phosphate Iminoaltritol Enantiomers and Structural Characterization with Adenine Phosphoribosyltransferase.
Harris LD, Harijan RK, Ducati RG, Evans GB, Hirsch BM, Schramm VL
ACS Chem Biol 13 152-160 (2018)
PMID: 29178779

Function and Biology Details

Reaction catalysed: 
AMP + diphosphate = adenine + 5-phospho-alpha-D-ribose 1-diphosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-155952 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Adenine phosphoribosyltransferase 1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 187 amino acids
Theoretical weight: 20.62 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli
UniProt:
  • Canonical: P49435 (Residues: 3-187; Coverage: 99%)
Gene names: APT1, YML022W
Sequence domains: Phosphoribosyl transferase domain
Structure domains: Rossmann fold

Ligands and Environments

3 bound ligands:
Ligand IR8 2 x IR8
Ligand EDO 5 x EDO
Ligand ADE 1 x ADE
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 31-ID
Spacegroup: C2
Unit cell:
a: 138.63Å b: 49.8Å c: 96.58Å
α: 90° β: 131.04° γ: 90°
R-values:
R R work R free
0.247 0.246 0.266
Expression system: Escherichia coli

Quick links

Citations

1 review citation

The transition to magic bullets - transition state analogue drug design.
Evans et al. (2018)
1 other article

1 mention without citation

Synthesis of bis-Phosphate Iminoaltritol Enantiomers and Structural Characterization with Adenine Phosphoribosyltransferase.
Harris et al. (2018)