SMTL ID : 5u7d.1 (2 other biounits)

PDE2 catalytic domain complexed with inhibitors

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

monomer

Ligands

1 x 19F: 2-(3,4-dimethoxybenzyl)-7-[(2R,3R)-2-hydroxy-6-phenylhexan-3-yl]-5-methylimidazo[5,1-f][1,2,4]triazin-4(3H)-one(Non-covalent)

19F.1: 22 residues within 4Å: Chain A: Y.81, H.82, A.193, T.194, D.195, L.196, H.199, T.231, D.234, L.235, Q.238, I.248, I.252, Y.253, F.256, M.273, L.284, Q.285, S.287, F.288, I.292, I.296 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:Y.81, A:L.196, A:L.196, A:H.199, A:T.231, A:L.235, A:L.235, A:I.252, A:F.256, A:F.288, A:F.288, A:F.288, A:I.292, A:I.296 Hydrogen bonds: A:H.82, A:Q.238, A:Q.285, A:Q.285 pi-Stacking: A:F.288

1 x ZN: ZINC ION(Non-covalent)

ZN.2: 5 residues within 4Å: Chain A: H.86, H.122, D.123, D.234 Ligands: MG.3 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.86, A:H.122, A:D.123, A:D.234, H2O.1, H2O.3

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 2 residues within 4Å: Chain A: D.123 Ligands: ZN.2 6 PLIP interactions: 1 interactions with chain A, 5 Ligand-Water interactions Metal complexes: A:D.123, H2O.1, H2O.1, H2O.2, H2O.5, H2O.9

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Helal, C.J. et al., Application of Structure-Based Design and Parallel Chemistry to Identify a Potent, Selective, and Brain Penetrant Phosphodiesterase 2A Inhibitor. J. Med. Chem. (2017)

Release Date

2017-06-28

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

cGMP-dependent 3',5'-cyclic phosphodiesterase

Related Entries With Identical Sequence