SMTL ID : 8b5y.1 (1 other biounit)

SHP2 in complex with allosteric imidazopyrazine inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.83 Å

Oligo State

monomer

Ligands

1 x P8O: (1~{S})-1'-[5-[2-(trifluoromethyl)pyridin-3-yl]sulfanyl-3~{H}-imidazo[4,5-b]pyrazin-2-yl]spiro[1,3-dihydroindene-2,4'-piperidine]-1-amine(Non-covalent)

P8O.1: 17 residues within 4Å: Chain A: T.109, E.111, R.112, F.114, H.115, N.218, T.219, T.220, E.250, E.251, T.254, L.255, Q.258, D.490, P.492, K.493, Q.496 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:P.492 Hydrogen bonds: A:T.109, A:R.112, A:T.219 Water bridges: A:R.112, A:T.219 pi-Cation interactions: A:R.112

13 x FMT: FORMIC ACID(Non-functional Binders)

FMT.2: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) FMT.3: 4 residues within 4Å: Chain A: F.42, W.249, F.252, E.253 1 PLIP interactions: 1 interactions with chain A Water bridges: A:E.509 FMT.4: 5 residues within 4Å: Chain A: G.25, S.29, Y.101, P.102, L.103 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.102 Water bridges: A:N.104 FMT.5: 1 residues within 4Å: Chain A: E.124 No protein-ligand interaction detected (PLIP) FMT.6: 4 residues within 4Å: Chain A: G.185, E.186, R.187 Ligands: FMT.14 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.187, A:R.187 FMT.7: 4 residues within 4Å: Chain A: K.483, G.484, V.485, D.486 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.485, A:D.486 FMT.8: 3 residues within 4Å: Chain A: E.482, K.483, G.484 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.482 FMT.9: 2 residues within 4Å: Chain A: V.485, L.526 No protein-ligand interaction detected (PLIP) FMT.10: 2 residues within 4Å: Chain A: Y.67, G.68 1 PLIP interactions: 1 interactions with chain A Water bridges: A:G.68 FMT.11: 2 residues within 4Å: Chain A: Q.336, V.369 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.336 FMT.12: 1 residues within 4Å: Chain A: S.431 2 PLIP interactions: 2 interactions with chain A Water bridges: A:S.431, A:S.431 FMT.13: 1 residues within 4Å: Chain A: S.392 No protein-ligand interaction detected (PLIP) FMT.14: 2 residues within 4Å: Chain A: R.187 Ligands: FMT.6 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.187

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Torrente, E. et al., Discovery of a Novel Series of Imidazopyrazine Derivatives as Potent SHP2 Allosteric Inhibitors. Acs Med.Chem.Lett. (2023)

Release Date

2023-01-18

Peptides

Tyrosine-protein phosphatase non-receptor type 11: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Tyrosine-protein phosphatase non-receptor type 11

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