SMTL ID : 8s9a.3 (2 other biounits)

Crystal structure of the TYK2 pseudokinase domain in complex with TAK-279

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.83 Å

Oligo State

monomer

Ligands

1 x ZSB: (8S)-N-[(1R,2R)-2-methoxycyclobutyl]-7-(methylamino)-5-{[(1P,2'P)-2-oxo-2H-[1,2'-bipyridin]-3-yl]amino}pyrazolo[1,5-a]pyrimidine-3-carboxamide(Non-covalent)

ZSB.1: 19 residues within 4Å: Chain A: L.21, G.22, Q.23, G.24, T.27, V.29, V.66, K.68, E.114, Y.115, V.116, E.117, G.119, P.120, V.123, R.164, N.165, L.167, S.184 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.21, A:R.164, A:L.167 Hydrogen bonds: A:K.68, A:V.116 Water bridges: A:L.21, A:S.184 pi-Cation interactions: A:R.164

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

EDO.2: 6 residues within 4Å: Chain A: T.25, E.197, E.200, R.201 Ligands: ACT.3, EDO.4 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.25, A:R.201 EDO.4: 7 residues within 4Å: Chain A: N.160, C.162, R.201, W.204 Ligands: EDO.2, ACT.3, EDO.8 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.160, A:N.160 EDO.7: 2 residues within 4Å: Chain A: H.93, T.94 1 PLIP interactions: 1 interactions with chain A Water bridges: A:T.94 EDO.8: 7 residues within 4Å: Chain A: D.122, C.162, G.163, R.164, W.204, E.232 Ligands: EDO.4 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.164 Water bridges: A:D.122, A:R.126

3 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 8 residues within 4Å: Chain A: G.24, T.25, N.160, C.162, R.164, R.201 Ligands: EDO.2, EDO.4 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.160, A:N.165 Water bridges: A:T.25 Salt bridges: A:R.201 ACT.5: 3 residues within 4Å: Chain A: P.240, L.241, R.244 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.241 Water bridges: A:R.244 Salt bridges: A:R.244 ACT.6: 2 residues within 4Å: Chain A: R.9, D.11 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:R.9

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Leit, S. et al., Discovery of a Potent and Selective Tyrosine Kinase 2 Inhibitor: TAK-279. J.Med.Chem. (2023)

Release Date

2023-07-26

Peptides

Non-receptor tyrosine-protein kinase TYK2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Non-receptor tyrosine-protein kinase TYK2

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