SMTL ID : 1udt.1

Crystal structure of Human Phosphodiesterase 5 complexed with Sildenafil(Viagra)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.81, H.117, D.118, D.228 Ligands: MG.2 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.81, A:H.117, A:D.118, A:D.228, H2O.3, H2O.3

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain A: D.118 Ligands: ZN.1 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.118, H2O.2, H2O.3, H2O.3, H2O.3

1 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: 14 residues within 4Å: Chain A: Y.76, H.77, N.125, Y.128, A.231, I.232, A.243, V.246, A.247, L.268, M.280, Q.281, G.283, F.284 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:V.246, A:A.247, A:L.268, A:M.280, A:F.284 Hydrogen bonds: A:Y.76, A:Q.281, A:Q.281 pi-Stacking: A:F.284

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sung, B.-J. et al., Structure of the catalytic domain of human phosphodiesterase 5 with bound drug molecules. Nature (2003)

Release Date

2004-05-11

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

cGMP-specific 3',5'-cyclic phosphodiesterase

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