› 4i5v

X-ray diffraction
2.7Å resolution

Crystal structure of yeast Ap4A phosphorylase Apa2 in complex with Ap4A

Released:
DOI: 10.2210/pdb4i5v/pdb
PDB entry 4i5v coloured by chain, front view.
PDB entry 4i5v coloured by chain, side view.
PDB entry 4i5v coloured by chain, top view.
Source organism: Saccharomyces cerevisiae
Primary publication:
Structures of yeast Apa2 reveal catalytic insights into a canonical AP₄A phosphorylase of the histidine triad superfamily.
Hou WT, Li WZ, Chen Y, Jiang YL, Zhou CZ
J Mol Biol 425 2687-98 (2013)
PMID: 23628156

Function and Biology Details

Reactions catalysed: 
ADP + sulfate = phosphate + adenylyl sulfate
ADP + ATP = phosphate + P(1),P(4)-bis(5'-adenosyl) tetraphosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-149526 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Diadenosine 5',5'''-P1,P4-tetraphosphate phosphorylase 2 Chains: A, B
Molecule details ›
Chains: A, B
Length: 333 amino acids
Theoretical weight: 37.84 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli
UniProt:
  • Canonical: P22108 (Residues: 1-325; Coverage: 100%)
Gene names: APA2, D9719.33, YDR530C
Sequence domains:
Structure domains: HIT family, subunit A

Ligands and Environments

1 bound ligand:
Ligand B4P 2 x B4P
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U
Spacegroup: C2
Unit cell:
a: 203.353Å b: 52.781Å c: 70.764Å
α: 90° β: 99.92° γ: 90°
R-values:
R R work R free
0.185 0.181 0.261
Expression system: Escherichia coli

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Citations

1 review citation

Re-evaluation of Diadenosine Tetraphosphate (Ap4A) From a Stress Metabolite to Bona Fide Secondary Messenger.
Ferguson et al. (2020)
3 other articles

1 mention without citation

The mysterious diadenosine tetraphosphate (AP4A).
Zegarra et al. (2023)