SMTL ID : 8w4s.1

Crystal structure of PDE5A in complex with CVT-313

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

monomer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 2 residues within 4Å: Chain A: D.141, E.169 6 PLIP interactions: 1 interactions with chain A, 5 Ligand-Water interactions Metal complexes: A:D.141, H2O.1, H2O.1, H2O.1, H2O.3, H2O.3

1 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: H.104, H.140, D.141, D.251 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.104, A:H.140, A:D.141, A:D.251, H2O.1, H2O.1

1 x AJR: 2,2'-{[6-{[(4-methoxyphenyl)methyl]amino}-9-(propan-2-yl)-9H-purin-2-yl]azanediyl}di(ethan-1-ol)(Non-covalent)

AJR.3: 15 residues within 4Å: Chain A: Y.99, H.100, L.212, L.252, I.255, Q.262, A.266, V.269, A.270, F.273, F.274, I.300, M.303, Q.304, F.307 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:L.212, A:L.252, A:I.300, A:M.303 Hydrogen bonds: A:L.252, A:I.255, A:Q.304, A:Q.304 Water bridges: A:Y.99 pi-Stacking: A:F.273, A:F.307, A:F.307

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, J. et al., Drug repurposing and structure-based discovery of new PDE4 and PDE5 inhibitors. Eur.J.Med.Chem. (2023)

Release Date

2023-11-22

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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