SMTL ID : 6t2w.1

Crystal structure of the CSF1R kinase domain with a dihydropurinone inhibitor (compound 4)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

1 x M9T: 2-[(4-methoxy-2-methyl-phenyl)amino]-7-methyl-9-(4-oxidanylcyclohexyl)purin-8-one(Non-covalent)

M9T.1: 15 residues within 4Å: Chain A: L.47, G.48, V.55, A.73, K.75, V.106, T.122, E.123, Y.124, C.125, G.128, D.129, L.198, F.210, R.214 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:L.47, A:Y.124, A:L.198, A:F.210 Hydrogen bonds: A:C.125, A:C.125 Water bridges: A:L.47, A:D.129, A:R.214

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 2 residues within 4Å: Chain A: H.114, G.115 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.115 Water bridges: A:H.114, A:H.114 SO4.3: 3 residues within 4Å: Chain A: Q.290, P.295, K.296 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.290, A:Q.290, A:K.296 Water bridges: A:N.297 SO4.4: 3 residues within 4Å: Chain A: R.135, N.221, N.267 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.221 Water bridges: A:R.135, A:D.219, A:S.220, A:N.267 Salt bridges: A:R.135 SO4.5: 4 residues within 4Å: Chain A: Q.6, R.8, K.10, R.190 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:R.8, A:K.10, A:R.190

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Goldberg, F.W. et al., The Discovery of 7-Methyl-2-[(7-methyl[1,2,4]triazolo[1,5-a]pyridin-6-yl)amino]-9-(tetrahydro-2H-pyran-4-yl)-7,9-dihydro-8H-purin-8-one (AZD7648), a Potent and Selective DNA-Dependent Protein Kinase (DNA-PK) Inhibitor. J.Med.Chem. (2020)

Release Date

2020-01-01

Peptides

Macrophage colony-stimulating factor 1 receptor: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Macrophage colony-stimulating factor 1 receptor