SMTL ID : 8uoj.1

Crystal structure of human NUAK1-MARK3 kinase domain chimera bound with azepane (R)-#50 small molecule inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

1 x X5I: (6M)-4-{[(2R)-azepan-2-yl]methyl}-6-[(4R)-imidazo[1,2-a]pyridin-3-yl]-2H-pyrido[3,2-b][1,4]oxazin-3(4H)-one(Non-covalent)

X5I.1: 16 residues within 4Å: Chain A: L.20, A.41, I.74, M.90, E.91, Y.92, A.93, G.96, E.97, E.140, N.141, L.143, D.154, V.163, G.164 Ligands: EDO.5 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:A.41, A:I.74, A:E.140, A:N.141 Hydrogen bonds: A:A.93, A:E.140 Water bridges: A:K.22, A:E.97

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

EDO.2: 3 residues within 4Å: Chain A: K.227, Y.228, I.230 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.228 EDO.3: 5 residues within 4Å: Chain A: N.159, D.168, T.169, F.170, C.171 1 PLIP interactions: 1 interactions with chain A Water bridges: A:F.170 EDO.4: 6 residues within 4Å: Chain A: R.38, E.39, F.77, E.91, Y.92, R.324 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.39, A:Y.92, A:Y.92 Water bridges: A:E.39, A:E.39, A:E.39 EDO.5: 4 residues within 4Å: Chain A: E.97, Y.99, D.100 Ligands: X5I.1 2 PLIP interactions: 2 interactions with chain A Water bridges: A:Y.99, A:K.166 EDO.6: 2 residues within 4Å: Chain A: S.326 Ligands: BEZ.8 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.326

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

CL.7: 2 residues within 4Å: Chain A: R.15, R.32 Ligand excluded by PLIP

1 x BEZ: BENZOIC ACID(Non-covalent)

BEZ.8: 7 residues within 4Å: Chain A: L.35, T.36, R.38, I.292, M.296, L.322 Ligands: EDO.6 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.292, A:L.322 Salt bridges: A:R.38

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Poullennec, K.G. et al., Discovery of UCB9386: A Potent, Selective, and Brain-Penetrant Nuak1 Inhibitor Suitable for In Vivo Pharmacological Studies. J.Med.Chem. (2024)

Release Date

2024-11-06

Peptides

MAP/microtubule affinity-regulating kinase 3: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

MAP/microtubule affinity-regulating kinase 3

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