SMTL ID : 8t5m.1

SOS2 crystal structure with fragment bound (compound 14)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.79 Å

Oligo State

monomer

Ligands

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

EDO.1: 7 residues within 4Å: Chain A: L.10, V.19, V.20, D.22, K.49, E.52, Y.56 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.22, A:Y.56 Water bridges: A:R.53 EDO.2: 4 residues within 4Å: Chain A: R.227, V.302, L.306, P.483 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.227

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

SO4.3: 8 residues within 4Å: Chain A: V.138, E.139, H.140, H.141, F.142, Y.143, K.181, Q.241 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:H.140, A:F.142, A:Y.143, A:Q.241 Salt bridges: A:K.181 SO4.4: 4 residues within 4Å: Chain A: P.62, V.65, N.132, H.136 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.66, A:N.132 Water bridges: A:H.136 Salt bridges: A:H.136 SO4.5: 2 residues within 4Å: Chain A: Q.335, E.336 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.336 SO4.6: 2 residues within 4Å: Chain A: N.461, P.462 No protein-ligand interaction detected (PLIP)

1 x YIF: 4-[(1R,2S)-1-hydroxy-2-{[2-(4-hydroxyphenyl)ethyl]amino}propyl]phenol

YIF.7: 9 residues within 4Å: Chain A: Y.325, R.326, D.328, F.331, R.339, L.342, D.343, V.346, R.460 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:Y.325, A:R.326, A:F.331, A:F.331 Hydrogen bonds: A:Y.325, A:D.328, A:D.343

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Smith, C.R. et al., Discovery of Five SOS2 Fragment Hits with Binding Modes Determined by SOS2 X-Ray Cocrystallography. J.Med.Chem. (2024)

Release Date

2024-01-10

Peptides

Son of sevenless homolog 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Son of sevenless homolog 2

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