SMTL ID : 6il3.1

Crystal structure of the FLT3 kinase bound to a small molecule inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

monomer

Ligands

1 x A9R: 7-methoxy-6-(1-methyl-1H-pyrazol-4-yl)-3-(pyridin-2-yl)imidazo[1,2-a]pyridine(Non-covalent)

A9R.1: 13 residues within 4Å: Chain A: L.79, A.105, K.107, V.138, F.154, E.155, Y.156, C.157, G.160, D.161, L.230, D.241, F.242 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.156, A:F.242, A:F.242 Hydrogen bonds: A:C.157

4 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 4 residues within 4Å: Chain A: R.167, N.253, N.299 Ligands: CXS.6 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.253, A:N.299 Water bridges: A:N.253 Salt bridges: A:R.167 PO4.3: 8 residues within 4Å: Chain A: E.67, F.68, P.69, R.70, C.144, T.145, L.146, S.147 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:E.67, A:E.67, A:F.68, A:R.70, A:T.145, A:L.146, A:S.147, A:S.147 Salt bridges: A:R.70 PO4.4: 3 residues within 4Å: Chain A: Y.159, H.233, G.234 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.159, A:G.234 Salt bridges: A:H.233 PO4.5: 5 residues within 4Å: Chain A: F.33, A.83, D.247, I.248, R.261 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.247 Salt bridges: A:R.261

2 x CXS: 3-CYCLOHEXYL-1-PROPYLSULFONIC ACID(Non-covalent)

CXS.6: 7 residues within 4Å: Chain A: R.167, R.170, G.297, V.298, N.299 Ligands: PO4.2, GOL.11 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.299 Water bridges: A:R.170, A:R.170 Salt bridges: A:R.167, A:R.170 CXS.7: 5 residues within 4Å: Chain A: K.65, W.66, E.67, F.68, L.141 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.68 Salt bridges: A:K.65

10 x GOL: GLYCEROL(Non-functional Binders)

GOL.8: 3 residues within 4Å: Chain A: Q.103, Y.156, H.233 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.233 GOL.9: 5 residues within 4Å: Chain A: K.319, A.339, F.340, D.341, K.344 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.319, A:K.319, A:F.340, A:D.341 GOL.10: 3 residues within 4Å: Chain A: Q.322, T.327, E.328 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.322, A:E.328, A:E.329 GOL.11: 7 residues within 4Å: Chain A: K.265, N.299, P.302, G.303, I.304, P.305 Ligands: CXS.6 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.303 GOL.12: 3 residues within 4Å: Chain A: S.48, D.49, R.343 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.49, A:D.49, A:R.343 GOL.13: 4 residues within 4Å: Chain A: N.50, Y.52, Y.54, G.275 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.50 GOL.14: 3 residues within 4Å: Chain A: F.197, F.324, Y.325 No protein-ligand interaction detected (PLIP) GOL.15: 4 residues within 4Å: Chain A: G.46, S.47, S.48, E.51 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.47, A:S.48, A:E.51 GOL.16: 3 residues within 4Å: Chain A: K.86, K.110, E.111 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.86, A:E.111, A:E.111 GOL.17: 4 residues within 4Å: Chain A: Y.159, Y.165, S.168, K.169 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.169, A:K.169

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

CL.18: 6 residues within 4Å: Chain A: Q.38, D.223, N.228, D.241, F.242, G.243 Ligand excluded by PLIP CL.19: 2 residues within 4Å: Chain A: D.247, Y.254 Ligand excluded by PLIP CL.20: 2 residues within 4Å: Chain A: R.246, D.251 Ligand excluded by PLIP

Links

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Citation

Thomas, C.J., Crystal structure of the FLT3 kinase bound to a small molecule inhibitor. To Be Published

Release Date

2018-12-12

Peptides

Receptor-type tyrosine-protein kinase FLT3: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Receptor-type tyrosine-protein kinase FLT3