SMTL ID : 2rku.2 (1 other biounit)

Structure of PLK1 in complex with BI2536

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.57, K.61, C.176 Chain B: C.219 Ligands: TLA.3 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Metal complexes: B:C.219, A:H.57, A:C.176 ZN.8: 5 residues within 4Å: Chain A: C.219 Chain B: H.57, K.61, C.176 Ligands: TLA.10 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Metal complexes: B:H.57, B:C.176, A:C.219

2 x R78: 4-{[(7R)-8-cyclopentyl-7-ethyl-5-methyl-6-oxo-5,6,7,8-tetrahydropteridin-2-yl]amino}-3-methoxy-N-(1-methylpiperidin-4-yl)benzamide(Non-covalent)

R78.2: 16 residues within 4Å: Chain A: R.21, F.22, L.23, G.24, K.25, C.31, E.33, A.44, V.78, L.94, E.95, L.96, C.97, R.98, R.100, F.147 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.23, A:A.44, A:R.100 Hydrogen bonds: A:L.23, A:C.97, A:C.97 Water bridges: A:R.21, A:D.158 R78.9: 16 residues within 4Å: Chain B: R.21, F.22, L.23, G.24, K.25, C.31, E.33, A.44, V.78, L.94, E.95, L.96, C.97, R.98, R.100, F.147 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:L.23, B:A.44, B:R.100 Hydrogen bonds: B:L.23, B:C.97, B:C.97 Water bridges: B:R.21, B:D.158

4 x TLA: L(+)-TARTARIC ACID(Non-covalent)

TLA.3: 9 residues within 4Å: Chain A: K.55, H.57, K.61, C.176 Chain B: S.218, C.219, L.220 Ligands: ZN.1, TLA.4 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:K.55, B:L.220 Water bridges: A:K.61, A:K.61 Salt bridges: A:K.55, A:H.57, A:K.61 TLA.4: 5 residues within 4Å: Chain A: F.28, K.55, Q.58, K.61 Ligands: TLA.3 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.58, A:K.61 Salt bridges: A:K.55, A:K.61, A:K.61 TLA.10: 9 residues within 4Å: Chain A: S.218, C.219, L.220 Chain B: K.55, H.57, K.61, C.176 Ligands: ZN.8, TLA.11 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:K.55, A:L.220 Water bridges: B:K.61, B:K.61 Salt bridges: B:K.55, B:H.57, B:K.61 TLA.11: 5 residues within 4Å: Chain B: F.28, K.55, Q.58, K.61 Ligands: TLA.10 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Q.58, B:K.61 Salt bridges: B:K.55, B:K.61, B:K.61

4 x SRT: S,R MESO-TARTARIC ACID(Non-covalent)

SRT.5: 5 residues within 4Å: Chain A: N.230, Y.232, S.233, I.234, Q.247 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.230, A:Y.232, A:Y.232, A:I.234 SRT.6: 5 residues within 4Å: Chain A: R.99, R.100, E.104, L.105, L.283 3 PLIP interactions: 3 interactions with chain A Water bridges: A:S.101, A:L.105 Salt bridges: A:R.99 SRT.12: 5 residues within 4Å: Chain B: N.230, Y.232, S.233, I.234, Q.247 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:N.230, B:Y.232, B:Y.232, B:Y.232, B:I.234 SRT.13: 5 residues within 4Å: Chain B: R.99, R.100, E.104, L.105, L.283 3 PLIP interactions: 3 interactions with chain B Water bridges: B:S.101, B:L.105 Salt bridges: B:R.99

2 x TAR: D(-)-TARTARIC ACID(Non-covalent)

TAR.7: 5 residues within 4Å: Chain A: L.103, K.142, L.143, G.144, N.180 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.144, A:N.180 Water bridges: A:K.142, A:L.143 Salt bridges: A:K.142, A:K.142 TAR.14: 5 residues within 4Å: Chain B: L.103, K.142, L.143, G.144, N.180 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:G.144, B:N.180 Water bridges: B:K.142, B:L.143 Salt bridges: B:K.142, B:K.142

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kothe, M. et al., Selectivity-determining residues in Plk1. Chem.Biol.Drug Des. (2007)

Release Date

2008-02-05

Peptides

Serine/threonine-protein kinase PLK1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Serine/threonine-protein kinase PLK1

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