SMTL ID : 2h44.1

Crystal structure of PDE5A1 in complex with icarisid II

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.83, H.119, D.120, D.230 Ligands: MG.2 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.83, A:H.119, A:D.120, A:D.230, H2O.1, H2O.1

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: H.79, D.120, H.123 Ligands: ZN.1, 7CA.3 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.120, H2O.1, H2O.1, H2O.1, H2O.1

1 x 7CA: 5,7-DIHYDROXY-2-(4-METHOXYPHENYL)-8-(3-METHYLBUTYL)-4-OXO-4H-CHROMEN-3-YL 6-DEOXY-ALPHA-L-MANNOPYRANOSIDE(Non-covalent)

7CA.3: 22 residues within 4Å: Chain A: Y.78, H.79, N.127, S.129, Y.130, I.131, S.134, L.191, D.230, L.231, A.233, I.234, Q.241, I.244, A.245, V.248, F.252, L.270, M.282, Q.283, F.286 Ligands: MG.2 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:I.234, A:V.248, A:F.252, A:L.270, A:L.270, A:M.282, A:F.286, A:F.286 Hydrogen bonds: A:I.131, A:S.134, A:S.134, A:Q.241 Water bridges: A:H.79, A:H.83, A:T.189, A:D.230, A:D.230, A:D.230 Salt bridges: A:H.79 pi-Stacking: A:F.252, A:F.252, A: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: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

cGMP-specific 3',5'-cyclic phosphodiesterase

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