SMTL ID : 8uoh.1

Crystal structure of human NUAK1-MARK3 kinase domain chimera bound with small molecule inhibitor #10

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

homo-dimer

Ligands

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

EDO.1: 8 residues within 4Å: Chain A: K.43, L.58, E.61, M.65, L.88, F.157, F.161 Ligands: EDO.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.43, A:E.61 EDO.2: 8 residues within 4Å: Chain A: K.43, M.65, I.74, M.90, A.153, D.154, F.157 Ligands: EDO.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.43, A:K.43, A:D.154 Water bridges: A:I.152, A:F.155 EDO.3: 4 residues within 4Å: Chain A: G.226, K.227, Y.228, I.230 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.228 Water bridges: A:Y.228, A:E.239, A:E.239 EDO.6: 8 residues within 4Å: Chain B: I.73, I.74, I.152, A.153, D.154, F.155, F.157 Ligands: EDO.9 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:I.74, B:A.153, B:F.155 EDO.7: 5 residues within 4Å: Chain B: G.1, A.2, M.3, P.9, H.10 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:H.10, B:H.10 Water bridges: B:M.3, B:M.3 EDO.8: 8 residues within 4Å: Chain B: K.43, L.58, E.61, M.65, L.88, F.157, F.161 Ligands: EDO.9 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.43 Water bridges: B:E.61, B:E.61 EDO.9: 10 residues within 4Å: Chain B: K.43, M.65, I.74, M.90, A.153, D.154, F.157 Ligands: X4W.5, EDO.6, EDO.8 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.43, B:K.43, B:D.154 EDO.10: 6 residues within 4Å: Chain B: Y.99, L.102, T.203, G.207, S.208, L.209 No protein-ligand interaction detected (PLIP) EDO.11: 4 residues within 4Å: Chain B: G.226, K.227, Y.228, I.230 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.228 Water bridges: B:E.239

1 x NI: NICKEL (II) ION(Non-covalent)

NI.4: 2 residues within 4Å: Chain A: G.1, H.10 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:G.1, A:H.10

1 x X4W: (6P)-6-[(4S)-imidazo[1,2-a]pyridin-3-yl]-4-[(1R)-1-phenylethyl]-2H-pyrido[3,2-b][1,4]oxazin-3(4H)-one(Non-covalent)

X4W.5: 15 residues within 4Å: Chain B: L.20, G.21, K.43, M.90, E.91, Y.92, A.93, E.97, E.140, L.143, D.154, F.161, T.162, V.163 Ligands: EDO.9 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:L.20, B:Y.92, B:V.163, B:V.163 Hydrogen bonds: B:A.93, B:V.163

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Delker, S.L. et al., Crystal structure of human NUAK1-MARK3 kinase domain chimera bound with small molecule inhibitor #10. To Be Published

Release Date

2024-10-23

Peptides

MAP/microtubule affinity-regulating kinase 3: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

MAP/microtubule affinity-regulating kinase 3

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