SMTL ID : 3o56.1

Catalytic domain of human phosphodiesterase 4b2b in complex with a 5-heterocycle pyrazolopyridine inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.42 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.88, H.124, D.125, D.242 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.88, A:H.124, A:D.125, A:D.242, H2O.2, H2O.3

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain A: D.125, E.154 6 PLIP interactions: 1 interactions with chain A, 5 Ligand-Water interactions Metal complexes: A:D.125, H2O.2, H2O.2, H2O.2, H2O.2, H2O.2

3 x ARS: ARSENIC(Non-covalent)(Covalent)

ARS.3: 1 residues within 4Å: Chain A: C.44 No protein-ligand interaction detected (PLIP) ARS.4: 2 residues within 4Å: Chain A: E.167, C.170 No protein-ligand interaction detected (PLIP) ARS.5: 3 residues within 4Å: Chain A: S.279, C.282 Ligands: ZG1.6 No protein-ligand interaction detected (PLIP)

1 x ZG1: 1-ethyl-5-[3-(2-oxo-2-pyrrolidin-1-ylethyl)-1,2,4-oxadiazol-5-yl]-N-(tetrahydro-2H-pyran-4-yl)-1H-pyrazolo[3,4-b]pyridin-4-amine(Non-covalent)

ZG1.6: 15 residues within 4Å: Chain A: Y.83, H.84, S.132, M.197, L.243, N.245, Y.253, W.256, T.257, I.260, F.264, M.281, Q.293, F.296 Ligands: ARS.5 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:L.243, A:N.245, A:W.256, A:I.260, A:F.264, A:F.296 Hydrogen bonds: A:Q.293 Water bridges: A:Y.83 pi-Stacking: A:F.264, A:F.296

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 4 residues within 4Å: Chain A: A.107, V.108, F.109, T.110 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:F.109 GOL.8: 1 residues within 4Å: Chain A: F.135 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mitchell, C.J. et al., Pyrazolopyridines as potent PDE4B inhibitors: 5-heterocycle SAR. Bioorg.Med.Chem.Lett. (2010)

Release Date

2011-08-03

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

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

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