SMTL ID : 4qge.1 (1 other biounit)

phosphodiesterase-9A in complex with inhibitor WYQ-C36D

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x 35O: N~2~-(1-cyclopentyl-4-oxo-4,7-dihydro-1H-pyrazolo[3,4-d]pyrimidin-6-yl)-N-(4-methoxyphenyl)-D-alaninamide(Non-covalent)

35O.1: 7 residues within 4Å: Chain A: H.252, M.365, L.420, Y.424, A.452, Q.453, F.456 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:M.365, A:L.420, A:A.452, A:F.456 Hydrogen bonds: A:Y.424, A:Y.424, A:A.452, A:Q.453 pi-Stacking: A:F.456 35O.4: 8 residues within 4Å: Chain B: M.365, I.403, L.420, Y.424, F.441, A.452, Q.453, F.456 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:M.365, B:I.403, B:Y.424, B:F.441, B:A.452, B:F.456 Hydrogen bonds: B:Y.424, B:Y.424, B:A.452, B:Q.453 pi-Stacking: B:F.456

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 5 residues within 4Å: Chain A: H.256, H.292, D.293, D.402 Ligands: MG.3 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.256, A:H.292, A:D.293, A:D.402, H2O.1, H2O.1 ZN.5: 5 residues within 4Å: Chain B: H.256, H.292, D.293, D.402 Ligands: MG.6 6 PLIP interactions: 4 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.256, B:H.292, B:D.293, B:D.402, H2O.6, H2O.6

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 3 residues within 4Å: Chain A: D.293, E.322 Ligands: ZN.2 5 PLIP interactions: 5 Ligand-Water interactions Metal complexes: H2O.1, H2O.1, H2O.1, H2O.1, H2O.1 MG.6: 3 residues within 4Å: Chain B: D.293, E.322 Ligands: ZN.5 5 PLIP interactions: 5 Ligand-Water interactions Metal complexes: H2O.6, H2O.6, H2O.6, H2O.6, H2O.6

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shao, Y.X. et al., Discovery of a Phosphodiesterase 9A Inhibitor as a Potential Hypoglycemic Agent. J.Med.Chem. (2014)

Release Date

2014-12-10

Peptides

Phosphodiesterase 9A: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Phosphodiesterase 9A

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