SMTL ID : 9mjm.1

SOS1 IN COMPLEX WITH AN INHIBITOR

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.17 Å

Oligo State

monomer

Ligands

1 x 01: 2-({(1R)-1-[2-methyl-3-(trifluoromethyl)phenyl]ethyl}amino)-3-(2-oxaspiro[3.3]heptan-6-yl)-5,6,7,8-tetrahydropyrido[4,3-d]pyrimidin-4(3H)-one

01.1: 15 residues within 4Å: Chain A: V.313, M.316, N.317, V.321, Y.322, F.328, K.336, L.339, E.340, H.343, E.344, E.347 Ligands: EDO.3, EDO.4, IMD.8 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:M.316, A:Y.322, A:Y.322, A:F.328, A:F.328, A:L.339, A:L.339, A:L.339, A:E.340, A:H.343 Hydrogen bonds: A:N.317, A:N.317, A:E.347 pi-Stacking: A:H.343 Halogen bonds: A:K.336

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

EDO.2: 9 residues within 4Å: Chain A: P.197, I.220, R.224, V.299, E.302, L.303, L.419, V.478, P.480 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.224, A:R.224 EDO.3: 5 residues within 4Å: Chain A: Y.322, D.325, F.328 Ligands: 01.1, IMD.8 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.325, A:D.325 EDO.4: 9 residues within 4Å: Chain A: L.310, V.313, S.314, N.317, H.343, S.346, Y.350, F.367 Ligands: 01.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.317, A:Y.350 EDO.5: 4 residues within 4Å: Chain A: M.435, S.438, M.439, E.440 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.438, A:E.440 Water bridges: A:E.440 EDO.6: 7 residues within 4Å: Chain A: T.266, T.267, T.270, L.271, E.274, S.314, E.440 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.267, A:S.314, A:E.440 EDO.7: 6 residues within 4Å: Chain A: N.282, L.283, E.284, L.462, P.463, R.464 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.282, A:E.284, A:P.463 Water bridges: A:L.283, A:L.283

1 x IMD: IMIDAZOLE(Non-covalent)

IMD.8: 4 residues within 4Å: Chain A: Y.322, E.340 Ligands: 01.1, EDO.3 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.322

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Leffler, A.E. et al., Exploiting Solvent Exposed Salt-Bridge Interactions for the Discovery of Potent Inhibitors of SOS1 Using Free-Energy Perturbation Simulations. Acs Med.Chem.Lett. (2025)

Release Date

2025-04-02

Peptides

Son of sevenless homolog 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Son of sevenless homolog 1

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