SMTL ID : 7aw4.1 (1 other biounit)

MerTK kinase domain with type 3 inhibitor from a DNA-encoded library

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.98 Å

Oligo State

monomer

Ligands

1 x S5E: 3-methyl-5-(4-methyl-1,2,3-thiadiazol-5-yl)-N-((R)-1-(((R)-3-(methylamino)-3-oxo-1-(4-(trifluoromethyl)phenyl)propyl)amino)-1-oxo-4-phenylbutan-2-yl)isoxazole-4-carboxamide(Non-covalent)

S5E.1: 22 residues within 4Å: Chain A: K.68, M.70, L.72, E.79, E.82, F.83, E.86, A.87, M.90, V.98, I.99, L.101, V.118, L.120, L.163, F.168, L.169, H.170, R.171, V.188, A.189, D.190 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:L.72, A:E.79, A:E.82, A:F.83, A:F.83, A:I.99, A:V.118, A:L.120, A:D.190 Hydrogen bonds: A:K.68, A:E.86, A:E.86, A:E.86, A:D.190 pi-Stacking: A:F.168, A:H.170

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

CL.2: 2 residues within 4Å: Chain A: R.136, M.247 Ligand excluded by PLIP CL.3: 4 residues within 4Å: Chain A: Y.250, P.251, L.268, K.269 Ligand excluded by PLIP

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

EDO.4: 2 residues within 4Å: Chain A: H.266 Ligands: EDO.5 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.266 Water bridges: A:R.267 EDO.5: 3 residues within 4Å: Chain A: R.267, Y.279 Ligands: EDO.4 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.267, A:Y.279 Water bridges: A:G.265, A:Y.279 EDO.6: 5 residues within 4Å: Chain A: P.251, V.253, Y.261, K.269 Ligands: EDO.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.251, A:K.269 EDO.7: 4 residues within 4Å: Chain A: G.252, E.257, Y.261 Ligands: EDO.6 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.252

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nissink, J.W.M. et al., Generating Selective Leads for Mer Kinase Inhibitors-Example of a Comprehensive Lead-Generation Strategy. J.Med.Chem. (2021)

Release Date

2021-03-03

Peptides

Tyrosine-protein kinase Mer: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Tyrosine-protein kinase Mer

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