SMTL ID : 2pe0.1

CRYSTAL STRUCTURE OF HUMAN PHOSPHOINOSITIDE-DEPENDENT PROTEIN KINASE 1 (PDK1) 5-Hydroxy-3-[1-(1H-pyrrol-2-yl)-eth-(Z)-ylidene]-1,3-dihydro-indol-2-one COMPLEX

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

monomer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: K.3, R.58, T.75, F.76, Q.77 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.75, A:Q.77 Water bridges: A:Q.77 Salt bridges: A:K.3, A:R.58 SO4.2: 1 residues within 4Å: Chain A: R.33 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.33

1 x 39Z: 5-HYDROXY-3-[(1R)-1-(1H-PYRROL-2-YL)ETHYL]-2H-INDOL-2-ONE(Non-covalent)

39Z.3: 9 residues within 4Å: Chain A: L.15, V.23, A.36, S.87, Y.88, A.89, G.92, L.139, T.149 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.15, A:L.139 Hydrogen bonds: A:A.89, A:A.89 Water bridges: A:D.150

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 6 residues within 4Å: Chain A: G.18, S.19, F.20, S.21, K.38, D.150 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:S.19, A:F.20, A:S.21, A:S.21, A:S.21, A:K.38, A:K.38 GOL.5: 3 residues within 4Å: Chain A: F.9, K.10, F.11 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:F.9, A:F.11, A:F.11 GOL.6: 6 residues within 4Å: Chain A: H.66, W.274, E.275, N.276, L.277, H.278 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:H.66, A:W.274, A:L.277, A:H.278, A:H.278

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Islam, I. et al., Indolinone based phosphoinositide-dependent kinase-1 (PDK1) inhibitors. Part 1: Design, synthesis and biological activity. Bioorg.Med.Chem.Lett. (2007)

Release Date

2007-06-12

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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