› 3jbq

Electron Microscopy
11Å resolution

Domain Organization and Conformational Plasticity of the G Protein Effector, PDE6

Released:
DOI: 10.2210/pdb3jbq/pdb
PDB entry 3jbq coloured by chain, front view.
PDB entry 3jbq coloured by chain, side view.
PDB entry 3jbq coloured by chain, top view.
Source organisms:
Primary publication:
Domain organization and conformational plasticity of the G protein effector, PDE6.
Zhang Z, He F, Constantine R, Baker ML, Baehr W, Schmid MF, Wensel TG, Agosto MA
J Biol Chem 290 12833-43 (2015)
PMID: 25809480
Related structures: EMD-6258

Function and Biology Details

Reactions catalysed: 
Guanosine 3',5'-cyclic phosphate + H(2)O = guanosine 5'-phosphate
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:
hetero dodecamer (preferred)
PDBe Complex ID:
PDB-CPX-209155 (preferred)
Entry contents:
6 distinct polypeptide molecules
Macromolecules (6 distinct):
IgG1-kappa 2E8 light chain Chains: L, l
Molecule details ›
Chains: L, l
Length: 214 amino acids
Theoretical weight: 23.54 KDa
Source organism: Mus musculus
IgG1-kappa 2E8 heavy chain Chains: H, h
Molecule details ›
Chains: H, h
Length: 220 amino acids
Theoretical weight: 23.78 KDa
Source organism: Mus musculus
Cone cGMP-specific 3',5'-cyclic phosphodiesterase subunit alpha'; cGMP-specific 3',5'-cyclic phosphodiesterase Chains: B, F
Molecule details ›
Chains: B, F
Length: 330 amino acids
Theoretical weight: 38.28 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: Q28156 (Residues: 525-586, 589-776, 817-850; Coverage: 33%)
  • Canonical: P16586 (Residues: 542-543, 741-780; Coverage: 5%)
Gene names: PDE5, PDE5A, PDE6C, PDEA2
Sequence domains: 3'5'-cyclic nucleotide phosphodiesterase
Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit gamma Chains: D, X
Molecule details ›
Chains: D, X
Length: 18 amino acids
Theoretical weight: 2.19 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P04972 (Residues: 70-87; Coverage: 21%)
Gene names: PDE6G, PDEG
cGMP-dependent 3',5'-cyclic phosphodiesterase Chains: C, G
Molecule details ›
Chains: C, G
Length: 185 amino acids
Theoretical weight: 20.67 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P14099 (Residues: 367-551; Coverage: 20%)
Gene name: PDE2A
Sequence domains: GAF domain
Cone cGMP-specific 3',5'-cyclic phosphodiesterase subunit alpha' Chains: 1, 2
Molecule details ›
Chains: 1, 2
Length: 186 amino acids
Theoretical weight: 21.55 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P52731 (Residues: 55-225, 226-228; Coverage: 20%)
Gene name: PDE6C
Sequence domains: GAF domain

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 11Å
Relevant EMDB volumes: EMD-6258

Quick links

Citations

4 review citations

Photoreceptor phosphodiesterase (PDE6): activation and inactivation mechanisms during visual transduction in rods and cones.
Cote RH. (2021)
3 more