SMTL ID : 2h42.4 (3 other biounits)

Crystal structure of PDE5 in complex with sildenafil

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.83, H.119, D.120, D.230 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.83, A:H.119, A:D.120, A:D.230, H2O.4 ZN.4: 4 residues within 4Å: Chain B: H.83, H.119, D.120, D.230 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.83, B:H.119, B:D.120, B:D.230, H2O.9

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: H.79, D.120, H.123 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.120, H2O.4 MG.5: 3 residues within 4Å: Chain B: H.79, D.120, H.123 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.120, H2O.9

2 x VIA: 5-{2-ETHOXY-5-[(4-METHYLPIPERAZIN-1-YL)SULFONYL]PHENYL}-1-METHYL-3-PROPYL-1H,6H,7H-PYRAZOLO[4,3-D]PYRIMIDIN-7-ONE(Non-covalent)

VIA.3: 18 residues within 4Å: Chain A: Y.78, N.127, N.128, Y.130, I.131, L.191, L.231, A.233, I.234, A.245, V.248, A.249, F.252, L.270, I.279, M.282, Q.283, F.286 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:A.249, A:F.252, A:L.270, A:I.279, A:M.282, A:F.286 Hydrogen bonds: A:Y.130, A:Q.283, A:Q.283 pi-Stacking: A:F.286 VIA.6: 18 residues within 4Å: Chain B: Y.78, N.127, N.128, Y.130, I.131, L.191, L.231, A.233, I.234, A.245, V.248, A.249, F.252, L.270, I.279, M.282, Q.283, F.286 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:A.249, B:F.252, B:L.270, B:I.279, B:M.282, B:F.286 Hydrogen bonds: B:Y.130, B:Q.283, B:Q.283 pi-Stacking: B:F.286

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, H. et al., Multiple Conformations of Phosphodiesterase-5: Implications for enzyme function and drug development. J.Biol.Chem. (2006)

Release Date

2006-06-06

Peptides

cGMP-specific 3',5'-cyclic phosphodiesterase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
C

cGMP-specific 3',5'-cyclic phosphodiesterase

Related Entries With Identical Sequence