SMTL ID : 6akr.2 (3 other biounits)

Crystal structure of the PDE4D catalytic domain in complex with osthole

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.33 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.90, H.126, D.127, D.244 Ligands: ZN.2 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.90, A:H.126, A:D.127, A:D.244, H2O.4 ZN.2: 2 residues within 4Å: Chain A: D.127 Ligands: ZN.1 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.127, H2O.1, H2O.2, H2O.2, H2O.3

1 x A0O: 7-methoxy-8-(3-methylbut-2-enyl)chromen-2-one(Non-covalent)

A0O.3: 12 residues within 4Å: Chain A: Y.85, M.199, N.247, W.258, T.259, I.262, M.263, F.266, M.283, S.294, Q.295, F.298 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:Y.85, A:F.266, A:F.298, A:F.298, A:F.298, A:F.298 Hydrogen bonds: A:Q.295

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, S. et al., Airway relaxation mechanisms and structural basis of osthole for improving lung function in asthma. Sci.Signal. (2020)

Release Date

2020-02-12

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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