SMTL ID : 4nw7.1

PDE4 catalytic domain

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.91, H.127, D.128, D.245 Ligands: MG.2 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.91, A:H.127, A:D.128, A:D.245, H2O.7

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain A: D.128 Ligands: ZN.1 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.128, H2O.1, H2O.2, H2O.3, H2O.7

1 x NA: SODIUM ION(Non-functional Binders)

NA.3: 3 residues within 4Å: Chain A: D.78, Y.80, H.81 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.80

1 x 2O5: (4-{[4-(3-chlorophenyl)-6-cyclopropyl-1,3,5-triazin-2-yl]amino}phenyl)acetic acid(Non-covalent)

2O5.4: 17 residues within 4Å: Chain A: H.87, S.135, M.200, N.248, P.249, Y.256, W.259, T.260, I.263, F.267, M.284, S.295, Q.296, F.299, L.355, F.359 Ligands: EDO.10 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:N.248, A:P.249, A:Y.256, A:I.263, A:F.267, A:F.299, A:F.299, A:F.299, A:L.355, A:F.359 Hydrogen bonds: A:Q.296 Water bridges: A:Y.86, A:Y.86, A:S.135, A:N.136, A:N.136 pi-Stacking: A:F.299

6 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.5: 5 residues within 4Å: Chain A: N.42, P.44, S.82, S.89, L.90 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.42, A:S.82 Water bridges: A:N.42, A:S.89, A:R.262 EDO.6: 3 residues within 4Å: Chain A: Y.50, Q.54, S.66 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.50, A:Q.54 Water bridges: A:Q.54 EDO.7: 4 residues within 4Å: Chain A: H.172, C.173, D.174, M.177 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.172, A:H.172, A:D.174 EDO.8: 7 residues within 4Å: Chain A: H.3, I.6, S.7, Y.50, S.66, D.67, I.70 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.50, A:Y.50, A:D.67 EDO.9: 4 residues within 4Å: Chain A: A.110, V.111, T.113, R.233 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.113, A:R.233 Water bridges: A:A.110, A:F.112 EDO.10: 5 residues within 4Å: Chain A: S.135, F.267, P.283, C.285 Ligands: 2O5.4 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:P.283 Water bridges: A:Q.270, A:S.282

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hagen, T.J. et al., Discovery of triazines as selective PDE4B versus PDE4D inhibitors. Bioorg.Med.Chem.Lett. (2014)

Release Date

2014-10-15

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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