SMTL ID : 1tbf.1

Catalytic Domain Of Human Phosphodiesterase 5A in Complex with Sildenafil

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.30 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.105, H.141, D.142, D.253 Ligands: MG.2 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.105, A:H.141, A:D.142, A:D.253, H2O.13, H2O.13

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: D.142, E.171 Ligands: ZN.1 6 PLIP interactions: 1 interactions with chain A, 5 Ligand-Water interactions Metal complexes: A:D.142, H2O.13, H2O.13, H2O.13, H2O.13, H2O.13

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: 11 residues within 4Å: Chain A: Y.100, L.214, L.254, A.268, V.271, A.272, F.275, L.293, M.305, Q.306, F.309 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:L.214, A:V.271, A:A.272, A:F.275, A:L.293, A:M.305, A:F.309 Hydrogen bonds: A:Y.100, A:Q.306, A:Q.306 Water bridges: A:Q.264 pi-Stacking: A:F.309

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 6 residues within 4Å: Chain A: Q.151, F.152, N.155, Q.278, E.282, I.288 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.155, A:E.282 Water bridges: A:E.282, A:T.291, A:T.291

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, K.Y.J. et al., A Glutamine Switch Mechanism for Nucleotide Selectivity by Phosphodiesterases. Mol.Cell (2004)

Release Date

2004-08-03

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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