SMTL ID : 9lgl.2 (1 other biounit)

Crystal structure of human PKMYT1 protein kinase domain with Naphthyridinone Inhibitor compound 6

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.17 Å

Oligo State

monomer

Ligands

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 2 residues within 4Å: Chain A: W.127, S.130 No protein-ligand interaction detected (PLIP)

1 x 01: 3-azanyl-7-chloranyl-4-(2-methyl-5-oxidanyl-phenyl)-1H-1,5-naphthyridin-2-one

01.2: 14 residues within 4Å: Chain A: L.42, G.43, V.50, A.63, K.65, H.87, V.97, T.113, E.114, L.115, C.116, F.166, G.176, D.177 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:L.42, A:V.50, A:A.63, A:K.65, A:T.113, A:F.166 Hydrogen bonds: A:T.113, A:E.114, A:C.116, A:D.177 Water bridges: A:E.83, A:E.83, A:G.117

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, B. et al., Discovery of Naphthyridinone Derivatives as Selective and Potent PKMYT1 Inhibitors with Antitumor Efficacy. J.Med.Chem. (2025)

Release Date

2025-05-14

Peptides

Membrane-associated tyrosine- and threonine-specific cdc2-inhibitory kinase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Membrane-associated tyrosine- and threonine-specific cdc2-inhibitory kinase

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