SMTL ID : 4j52.1

Crystal structure of PLK1 in complex with a pyrimidodiazepinone inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

1 x 1J3: 4-{[(7R)-9-cyclopentyl-7-ethenyl-7-fluoro-5-methyl-6-oxo-6,7,8,9-tetrahydro-5H-pyrimido[4,5-b][1,4]diazepin-2-yl]amino}-3-methoxy-N-(4-methylpiperazin-1-yl)benzamide(Non-covalent)

1J3.1: 16 residues within 4Å: Chain A: R.20, F.21, L.22, G.23, C.30, A.43, G.44, K.45, V.77, L.93, E.94, L.95, C.96, R.97, R.99, F.146 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.22, A:L.22, A:A.43, A:K.45, A:F.146 Hydrogen bonds: A:R.20, A:L.22, A:C.96, A:C.96 Water bridges: A:R.99, A:D.157

1 x ZN: ZINC ION(Non-covalent)

ZN.2: 3 residues within 4Å: Chain A: H.56, K.60, C.175 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.56, A:C.175, H2O.3

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 6 residues within 4Å: Chain A: L.102, K.141, L.142, G.143, N.179, Y.180 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.142, A:G.143, A:Y.180

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nie, Z. et al., Discovery of TAK-960: An orally available small molecule inhibitor of polo-like kinase 1 (PLK1). Bioorg.Med.Chem.Lett. (2013)

Release Date

2013-05-29

Peptides

Serine/threonine-protein kinase PLK1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Serine/threonine-protein kinase PLK1

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