SMTL ID : 9d0r.1

Crystal structure of human Wee1 kinase domain in complex with inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.34 Å

Oligo State

monomer

Ligands

1 x NA: SODIUM ION(Non-functional Binders)

NA.1: 4 residues within 4Å: Chain A: N.56, R.59, E.60, G.179 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.60, A:G.179 Water bridges: A:N.56, A:R.59, A:E.60

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

CL.2: 6 residues within 4Å: Chain A: A.99, K.142, P.143, S.144, R.195, F.196 Ligand excluded by PLIP CL.3: 5 residues within 4Å: Chain A: R.195, F.196, C.223, P.229, L.230 Ligand excluded by PLIP CL.4: 4 residues within 4Å: Chain A: R.8, E.12, F.13, K.32 Ligand excluded by PLIP CL.5: 3 residues within 4Å: Chain A: K.18, G.20, S.21 Ligand excluded by PLIP CL.6: 3 residues within 4Å: Chain A: R.244, L.245, K.261 Ligand excluded by PLIP

1 x 01: 7-methyl-2-{[1-(1-methylpiperidin-4-yl)-1H-pyrazol-4-yl]amino}-6-[(1R)-1-(thiophen-2-yl)ethyl]-7H-pyrrolo[2,3-d]pyrimidine-5-carbonitrile

01.7: 21 residues within 4Å: Chain A: E.17, I.19, G.20, V.27, A.40, I.41, K.42, E.60, H.64, V.74, I.88, N.90, E.91, Y.92, C.93, N.94, G.95, G.96, F.147, G.176, D.177 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:I.19, A:A.40, A:F.147 Hydrogen bonds: A:N.90, A:C.93, A:C.93 Water bridges: A:E.17, A:Y.92, A:S.97 Salt bridges: A:E.17 pi-Stacking: A:F.147, A:F.147

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Knight, J.L. et al., Harnessing free energy calculations for kinome-wide selectivity in drug discovery campaigns with a Wee1 case study. Nat Commun (2025)

Release Date

2025-09-10

Peptides

Wee1-like protein kinase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Wee1-like protein kinase

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