X-ray diffraction
1.31Å resolution

crystal structure of yeast phosphodiesterase-1 in complex with GMP


Function and Biology Details

Reaction catalysed:
Nucleoside 3',5'-cyclic phosphate + H(2)O = nucleoside 5'-phosphate
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Entry contents:
1 distinct polypeptide molecule
3',5'-cyclic-nucleotide phosphodiesterase 1 Chain: A
Molecule details ›
Chain: A
Length: 369 amino acids
Theoretical weight: 42.07 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli BL21
  • Canonical: P22434 (Residues: 1-369; Coverage: 100%)
Gene names: NRB369, PDE1, YGL248W
Sequence domains: cAMP phosphodiesterases class-II

Ligands and Environments

3 bound ligands:
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X29A
Spacegroup: C2221
Unit cell:
a: 73.674Å b: 85.162Å c: 130.836Å
α: 90° β: 90° γ: 90°
R R work R free
0.169 0.168 0.179
Expression system: Escherichia coli BL21