SMTL ID : 4a07.1

Human PDK1 Kinase Domain in Complex with Allosteric Activator PS171 Bound to the PIF-Pocket

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

monomer

Ligands

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

ATP.1: 20 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, V.95, L.111, S.112, Y.113, A.114, E.118, L.164, T.174, D.175 Ligands: MG.4 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:S.44, A:S.44, A:S.44, A:S.46, A:S.46, A:S.112, A:A.114, A:E.118 Water bridges: A:T.174, A:T.174 Salt bridges: A:K.63

2 x AZ7: (3S)-3-(4-CHLOROPHENYL)-4-(5,7-DICHLORO-1H-BENZIMIDAZOL-2-YL)BUTANOIC ACID(Non-covalent)

AZ7.2: 15 residues within 4Å: Chain A: K.28, L.65, K.67, I.70, I.71, V.76, V.79, T.80, R.83, T.100, F.101, Q.102, L.107, Y.108, F.109 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.107, A:L.107 Hydrogen bonds: A:T.100, A:Q.102 Salt bridges: A:K.28, A:R.83 Halogen bonds: A:V.76 AZ7.3: 13 residues within 4Å: Chain A: L.120, I.123, R.124, G.127, Q.199, Q.226, G.230, L.231, P.232, F.234, R.235, A.236, I.242 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.120, A:R.124, A:L.231, A:P.232 Hydrogen bonds: A:Q.226 Halogen bonds: A:F.234

1 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 3 residues within 4Å: Chain A: K.63, D.175 Ligands: ATP.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.175

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

CL.5: 4 residues within 4Å: Chain A: R.190, E.204, E.208, S.210 Ligand excluded by PLIP CL.6: 4 residues within 4Å: Chain A: K.260, D.263, H.291, P.292 Ligand excluded by PLIP CL.7: 4 residues within 4Å: Chain A: F.93, W.299, L.302, H.303 Ligand excluded by PLIP CL.8: 4 residues within 4Å: Chain A: F.194, A.198, V.201, F.243 Ligand excluded by PLIP CL.9: 3 residues within 4Å: Chain A: K.121, Y.122, K.125 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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