SMTL ID : 7aaz.1

Crystal structure of MerTK in complex with a type 1.5 aminopyridine inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

monomer

Ligands

1 x R6K: 2-azanyl-~{N}-[(1~{S},2~{S})-2-[[4-[4-[(4-methylpiperazin-1-yl)methyl]phenyl]phenyl]methoxy]cyclopentyl]-5-(1-methylpyrazol-4-yl)pyridine-3-carboxamide(Non-covalent)

R6K.1: 26 residues within 4Å: Chain A: L.25, V.33, A.49, K.51, M.53, F.66, E.69, M.73, I.82, L.84, V.101, L.103, P.104, F.105, M.106, G.109, R.159, N.160, M.162, A.172, D.173, F.174, G.175, S.177, Y.185 Ligands: CL.4 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:L.25, A:V.33, A:V.33, A:A.49, A:K.51, A:F.66, A:L.84, A:V.101, A:L.103, A:L.103, A:A.172, A:D.173, A:F.174, A:F.174 Hydrogen bonds: A:P.104, A:M.106, A:D.173 Salt bridges: A:E.69, A:E.69

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

CL.2: 4 residues within 4Å: Chain A: I.82, R.83, P.104, R.164 Ligand excluded by PLIP CL.3: 3 residues within 4Å: Chain A: K.252, Q.253, Y.262 Ligand excluded by PLIP CL.4: 2 residues within 4Å: Chain A: R.159 Ligands: R6K.1 Ligand excluded by PLIP CL.5: 4 residues within 4Å: Chain A: R.16, L.19, I.20, L.21 Ligand excluded by PLIP CL.6: 2 residues within 4Å: Chain A: R.119, M.230 Ligand excluded by PLIP CL.7: 4 residues within 4Å: Chain A: Y.233, P.234, L.251, K.252 Ligand excluded by PLIP

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

EDO.8: 4 residues within 4Å: Chain A: M.194, P.195, V.196, N.238 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:V.196, A:N.238 Water bridges: A:K.197 EDO.9: 8 residues within 4Å: Chain A: R.154, D.155, L.156, M.194, P.195, W.198, Y.209, A.217 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.156, A:Y.209, A:Y.209

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pflug, A. et al., A-loop interactions in Mer tyrosine kinase give rise to inhibitors with two-step mechanism and long residence time of binding. Biochem.J. (2020)

Release Date

2020-11-04

Peptides

Tyrosine-protein kinase Mer: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Tyrosine-protein kinase Mer

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