› 3ibj

X-ray diffraction
3.02Å resolution

X-ray structure of PDE2A

Released:
DOI: 10.2210/pdb3ibj/pdb
PDB entry 3ibj coloured by chain, front view.
PDB entry 3ibj coloured by chain, side view.
PDB entry 3ibj coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Mechanism for the allosteric regulation of phosphodiesterase 2A deduced from the X-ray structure of a near full-length construct.
Pandit J, Forman MD, Fennell KF, Dillman KS, Menniti FS
Proc Natl Acad Sci U S A 106 18225-30 (2009)
PMID: 19828435

Function and Biology Details

Reaction catalysed: 
Nucleoside 3',5'-cyclic phosphate + H(2)O = nucleoside 5'-phosphate
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-126261 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
cGMP-dependent 3',5'-cyclic phosphodiesterase Chains: A, B
Molecule details ›
Chains: A, B
Length: 691 amino acids
Theoretical weight: 78.95 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: O00408 (Residues: 215-900; Coverage: 73%)
Gene name: PDE2A
Sequence domains:
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand ZN 2 x ZN
Ligand MG 2 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-4
Spacegroup: P212121
Unit cell:
a: 66.233Å b: 89.699Å c: 264.187Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.215 0.21 0.311
Expression system: Spodoptera frugiperda

Quick links

Citations

25 review citations

cGMP-dependent protein kinases and cGMP phosphodiesterases in nitric oxide and cGMP action.
Francis et al. (2010)
24 more

20 mentions without citation

Cyclic nucleotide binding GAF domains from phosphodiesterases: structural and mechanistic insights.
Heikaus et al. (2009)
19 more