SMTL ID : 4oew.1

Crystal structure of the PDE5A1 catalytic domain in complex with novel inhibitors

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.44 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.104, H.140, D.141, D.251 Ligands: MG.2 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 MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: H.140, D.141 Ligands: ZN.1 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.141, H2O.1, H2O.1, H2O.1, H2O.2

1 x 5IO: 6-ethyl-5-iodo-2-{5-[(4-methylpiperazin-1-yl)sulfonyl]-2-propoxyphenyl}pyrimidin-4(3H)-one(Non-covalent)

5IO.3: 11 residues within 4Å: Chain A: Y.99, L.252, A.254, A.266, V.269, A.270, F.273, M.303, Q.304, F.307, I.311 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:L.252, A:A.266, A:V.269, A:A.270, A:F.273, A:F.307, A:F.307 Hydrogen bonds: A:Q.304, A:Q.304 pi-Stacking: A:F.307

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ren, J. et al., Thermodynamic and structural characterization of halogen bonding in protein-ligand interactions: a case study of PDE5 and its inhibitors. J.Med.Chem. (2014)

Release Date

2015-04-01

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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