SMTL ID : 4a06.1

Human PDK1 Kinase Domain in Complex with Allosteric Activator PS114 Bound to the PIF-Pocket

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.1: 16 residues within 4Å: Chain A: L.40, G.41, E.42, G.43, S.44, F.45, S.46, V.48, A.61, K.63, S.112, Y.113, A.114, E.118, L.164, D.175 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:G.43, A:S.44, A:S.44, A:F.45, A:S.46, A:S.112, A:A.114, A:E.118, A:D.175 Salt bridges: A:K.63

1 x A06: (3S)-4-(5-chloro-1H-benzimidazol-2-yl)-3-(4-chlorophenyl)butanoic acid(Non-covalent)

A06.2: 8 residues within 4Å: Chain A: K.67, I.71, V.76, R.83, T.100, L.107, Y.108, F.109 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:K.67, A:L.107, A:F.109 Halogen bonds: A:K.67

1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.3: 9 residues within 4Å: Chain A: H.91, P.92, S.143, W.299, E.300, N.301, L.302, H.303 Ligands: CL.7 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.303

8 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 2 residues within 4Å: Chain A: K.106, Y.108 Ligand excluded by PLIP CL.5: 1 residues within 4Å: Chain A: E.59 Ligand excluded by PLIP CL.6: 1 residues within 4Å: Chain A: Y.251 Ligand excluded by PLIP CL.7: 2 residues within 4Å: Chain A: K.289 Ligands: DMS.3 Ligand excluded by PLIP CL.8: 1 residues within 4Å: Chain A: Y.98 Ligand excluded by PLIP CL.9: 2 residues within 4Å: Chain A: K.35, G.37 Ligand excluded by PLIP CL.10: 1 residues within 4Å: Chain A: K.260 Ligand excluded by PLIP CL.11: 2 residues within 4Å: Chain A: F.194, G.196 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lopez-Garcia, L.A. et al., Allosteric Regulation of Protein Kinase Pkczeta by the N-Terminal C1 Domain and Small Compounds to the Pif-Pocket. Chem.Biol. (2011)

Release Date

2011-12-07

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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