SMTL ID : 7w4x.2 (1 other biounit)

Crystal structure of PDE4D catalytic domain complexed with 17

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: H.87, H.123, D.124, D.241 Ligands: MG.2, 8G7.3 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.87, A:H.123, A:D.124, A:D.241, H2O.2

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: H.123, D.124 Ligands: ZN.1 6 PLIP interactions: 1 interactions with chain A, 5 Ligand-Water interactions Metal complexes: A:D.124, H2O.1, H2O.1, H2O.2, H2O.2, H2O.3

1 x 8G7: (2R,4S)-2-(2-hydroxyethyl)-2,6-dimethyl-4-(2-methylprop-1-enyl)-3,4-dihydropyrano[3,2-c][1,8]naphthyridin-5-one(Non-covalent)

8G7.3: 13 residues within 4Å: Chain A: Y.82, H.83, H.87, D.124, M.196, D.241, N.244, I.259, F.263, M.280, Q.292, F.295 Ligands: ZN.1 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.295 Hydrogen bonds: A:Q.292 pi-Stacking: A:F.295

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Song, Z. et al., Discovery and Structural Optimization of Toddacoumalone Derivatives as Novel PDE4 Inhibitors for the Topical Treatment of Psoriasis. J.Med.Chem. (2022)

Release Date

2022-03-16

Peptides

cAMP-specific 3',5'-cyclic phosphodiesterase 4D: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

cAMP-specific 3',5'-cyclic phosphodiesterase 4D

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