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CRYSTAL STRUCTURE OF HUMAN PHOSPHODIESTERASE 2A IN COMPLEX with [1,2,4]triazolo[1,5-a]pyrimidin-7-yl}-N-(naphthalene-2-yl)piperidine-3-carboxamide

X-ray diffraction
1.72Å resolution
PDB entry 5tz3 coloured by chain, front view.
PDB entry 5tz3 coloured by chain, side view.
PDB entry 5tz3 coloured by chain, top view.
Source organism: Homo sapiens
Assembly composition:
monomeric (preferred)
Entry contents: 1 distinct polypeptide molecule

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Assemblies

Assembly 1 (preferred)
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Assembly Name: cGMP-dependent 3',5'-cyclic phosphodiesterase
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Multimeric state: monomeric
Accessible surface area: 16023.0 Å2
Buried surface area: 234.83 Å2
Dissociation area: 72.34 Å2
Dissociation energy (ΔGdiss): 16.59 kcal/mol
Dissociation entropy (TΔSdiss): -1.46 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-126260
Assembly 2
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Assembly Name: cGMP-dependent 3',5'-cyclic phosphodiesterase
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Multimeric state: monomeric
Accessible surface area: 15791.64 Å2
Buried surface area: 235.82 Å2
Dissociation area: 72.92 Å2
Dissociation energy (ΔGdiss): 17.55 kcal/mol
Dissociation entropy (TΔSdiss): -1.46 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-126260
Assembly 3
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Assembly Name: cGMP-dependent 3',5'-cyclic phosphodiesterase
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Multimeric state: monomeric
Accessible surface area: 15634.25 Å2
Buried surface area: 236.69 Å2
Dissociation area: 73.53 Å2
Dissociation energy (ΔGdiss): 16.4 kcal/mol
Dissociation entropy (TΔSdiss): -1.46 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-126260
Assembly 4
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Assembly Name: cGMP-dependent 3',5'-cyclic phosphodiesterase
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Multimeric state: monomeric
Accessible surface area: 15219.45 Å2
Buried surface area: 235.41 Å2
Dissociation area: 73.21 Å2
Dissociation energy (ΔGdiss): 16.92 kcal/mol
Dissociation entropy (TΔSdiss): -1.46 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-126260

Macromolecules

cGMP-dependent 3',5'-cyclic phosphodiesterase
Chains: A, B, C, D
Length: 344 amino acids
Theoretical weight: 40.17 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: O00408 (Residues: 579-919; Coverage: 36%)
Gene name: PDE2A
Pfam: 3'5'-cyclic nucleotide phosphodiesterase
InterPro:
CATH: 3'5'-cyclic nucleotide phosphodiesterase, catalytic domain
cGMP-dependent 3',5'-cyclic phosphodiesterase in PDB entry 5tz3, assembly 1, front view.
cGMP-dependent 3',5'-cyclic phosphodiesterase in PDB entry 5tz3, assembly 1, side view.
cGMP-dependent 3',5'-cyclic phosphodiesterase in PDB entry 5tz3, assembly 1, top view.
PDBe-KB: UniProt Coverage View: O00408  
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