SMTL ID : 1uu8.1

Structure of human PDK1 kinase domain in complex with BIM-1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

monomer

Ligands

7 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 7 residues within 4Å: Chain A: K.26, R.81, T.98, F.99, Q.100, L.105, F.107 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.26, A:K.26, A:R.81, A:R.81, A:Q.100 GOL.2: 4 residues within 4Å: Chain A: P.29, F.34, K.104, Y.106 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.104, A:Y.106 GOL.3: 8 residues within 4Å: Chain A: G.41, S.44, T.45, V.46, K.61, D.173 Ligands: SO4.10, BI1.11 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.41, A:S.44, A:V.46, A:K.61 GOL.4: 4 residues within 4Å: Chain A: L.247, Y.249, F.251, R.260 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.247 Water bridges: A:R.260 GOL.5: 3 residues within 4Å: Chain A: F.32, K.33, F.34 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:F.32, A:F.34, A:F.34 GOL.6: 8 residues within 4Å: Chain A: R.56, E.57, Y.58, Y.96, S.110, Y.111 Ligands: SO4.8, SO4.9 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.56, A:Y.111, A:Y.111 Water bridges: A:E.57 GOL.7: 7 residues within 4Å: Chain A: H.89, S.141, W.297, E.298, N.299, L.300, H.301 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.89, A:S.141, A:L.300, A:H.301

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

SO4.8: 4 residues within 4Å: Chain A: Y.96, S.110, Q.170 Ligands: GOL.6 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.170 SO4.9: 2 residues within 4Å: Chain A: R.56 Ligands: GOL.6 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.56 SO4.10: 5 residues within 4Å: Chain A: G.41, S.42, F.43, S.44 Ligands: GOL.3 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.42, A:F.43, A:S.44, A:S.44 Salt bridges: A:K.61

1 x BI1: 3-{1-[3-(DIMETHYLAMINO)PROPYL]-1H-INDOL-3-YL}-4-(1H-INDOL-3-YL)-1H-PYRROLE-2,5-DIONE(Non-covalent)

BI1.11: 16 residues within 4Å: Chain A: L.38, G.39, A.59, K.61, V.93, L.109, S.110, Y.111, A.112, E.116, E.159, N.160, L.162, T.172, D.173 Ligands: GOL.3 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.38, A:L.162, A:T.172, A:D.173 Hydrogen bonds: A:S.110, A:A.112 Salt bridges: A:E.116

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Komander, D. et al., Interactions of Ly333531 and Other Bisindolyl Maleimide Inhibitors with Pdk1. Structure (2004)

Release Date

2004-03-04

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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