SMTL ID : 3rwq.1 (1 other biounit)

Discovery of a Novel, Potent and Selective Inhibitor of 3-Phosphoinositide Dependent Kinase (PDK1)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.55 Å

Oligo State

monomer

Ligands

1 x 3RW: [4-AMINO-7-(PROPAN-2-YL)-7H-PYRROLO[2,3-D]PYRIMIDIN-5-YL](6-{[2-(PYRIDIN-3-YL)ETHYL]AMINO}PYRAZIN-2-YL)METHANONE(Non-covalent)

3RW.1: 19 residues within 4Å: Chain A: L.40, G.41, E.42, G.43, S.46, V.48, A.61, K.63, V.95, L.111, S.112, Y.113, A.114, E.118, E.161, L.164, T.174, D.175 Ligands: SO4.10 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:V.48, A:E.118, A:L.164 Hydrogen bonds: A:S.112, A:A.114, A:T.174 Water bridges: A:F.176

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: K.35, G.37, L.50, R.52, E.59 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.52, A:R.52, A:E.59 GOL.3: 8 residues within 4Å: Chain A: R.58, E.59, Y.60, Y.98, S.112, Y.113 Ligands: SO4.5, SO4.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.58, A:Y.113 GOL.4: 7 residues within 4Å: Chain A: H.91, S.143, W.299, E.300, N.301, L.302, H.303 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:H.91, A:W.299, A:L.302, A:H.303, A:H.303

7 x SO4: SULFATE ION(Non-functional Binders)

SO4.5: 3 residues within 4Å: Chain A: R.58 Ligands: GOL.3, SO4.7 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.58 SO4.6: 3 residues within 4Å: Chain A: F.34, K.35, F.36 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:F.36 Water bridges: A:F.34 SO4.7: 4 residues within 4Å: Chain A: R.58, E.59 Ligands: GOL.3, SO4.5 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.59, A:E.59 SO4.8: 1 residues within 4Å: Chain A: E.283 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.283 SO4.9: 2 residues within 4Å: Chain A: R.88, K.151 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.88, A:K.151 SO4.10: 3 residues within 4Å: Chain A: G.43, S.44 Ligands: 3RW.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.44 SO4.11: 5 residues within 4Å: Chain A: K.28, R.83, T.100, F.101, Q.102 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.100, A:F.101, A:Q.102 Salt bridges: A:K.28, A:R.83

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Murphy, S.T. et al., Discovery of Novel, Potent, and Selective Inhibitors of 3-Phosphoinositide-Dependent Kinase (PDK1). J.Med.Chem. (2011)

Release Date

2011-11-16

Peptides

3-phosphoinositide-dependent protein kinase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

3-phosphoinositide-dependent protein kinase 1

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