› 1xos

X-ray diffraction
2.28Å resolution

Catalytic Domain Of Human Phosphodiesterase 4B In Complex With Sildenafil

Released:
DOI: 10.2210/pdb1xos/pdb
PDB entry 1xos coloured by chain, front view.
PDB entry 1xos coloured by chain, side view.
PDB entry 1xos coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural basis for the activity of drugs that inhibit phosphodiesterases.
Card GL, England BP, Suzuki Y, Fong D, Powell B, Lee B, Luu C, Tabrizizad M, Gillette S, Ibrahim PN, Artis DR, Bollag G, Milburn MV, Kim SH, Schlessinger J, Zhang KY
Structure 12 2233-47 (2004)
PMID: 15576036

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-170460 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
3',5'-cyclic-AMP phosphodiesterase 4B Chain: A
Molecule details ›
Chain: A
Length: 398 amino acids
Theoretical weight: 45.88 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q07343 (Residues: 323-700; Coverage: 51%)
Gene names: DPDE4, PDE4B
Sequence domains: 3'5'-cyclic nucleotide phosphodiesterase
Structure domains: 3'5'-cyclic nucleotide phosphodiesterase, catalytic domain

Ligands and Environments

4 bound ligands:
Ligand ZN 1 x ZN
Ligand MG 1 x MG
Ligand SO4 1 x SO4
Ligand VIA 1 x VIA
1 modified residue:
Ligand CME 3 x CME

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 8.3.1
Spacegroup: I212121
Unit cell:
a: 94.571Å b: 107.117Å c: 89.481Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.212 0.21 0.257
Expression system: Escherichia coli

Quick links

Citations

27 review citations

Biochemistry and physiology of cyclic nucleotide phosphodiesterases: essential components in cyclic nucleotide signaling.
Conti et al. (2007)
26 more

1 mention without citation

An automated stochastic approach to the identification of the protein specificity determinants and functional subfamilies.
Mazin et al. (2010)