SMTL ID : 8fll.1

Crystal structure of BTK kinase domain in complex with pirtobrutinib

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

1 x Y7W: pirtobrutinib(Non-covalent)

Y7W.1: 19 residues within 4Å: Chain A: L.22, G.23, V.30, A.42, K.44, F.56, M.63, V.72, I.86, T.88, E.89, Y.90, M.91, G.94, L.142, S.152, D.153, F.154, L.156 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:V.30, A:A.42, A:K.44, A:F.56, A:T.88, A:L.142, A:L.142 Hydrogen bonds: A:T.88, A:E.89, A:M.91, A:M.91, A:D.153, A:D.153 pi-Stacking: A:F.154

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

SO4.2: 5 residues within 4Å: Chain A: S.206, K.209, Y.231, P.233, H.234 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.206, A:H.234 Water bridges: A:L.235 Salt bridges: A:H.234

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 4 residues within 4Å: Chain A: R.101, R.104, G.208, K.209 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.104, A:R.104, A:G.208 GOL.4: 5 residues within 4Å: Chain A: G.227, L.228, R.229, Y.245 Ligands: BTB.5 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.229

1 x BTB: 2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-covalent)

BTB.5: 5 residues within 4Å: Chain A: E.238, Y.241, T.242, Y.245 Ligands: GOL.4 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.238 Water bridges: A:Y.241, A:T.242

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gomez, E.B. et al., Preclinical characterization of pirtobrutinib, a highly selective, noncovalent (reversible) BTK inhibitor. Blood (2023)

Release Date

2023-03-01

Peptides

Tyrosine-protein kinase BTK: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Tyrosine-protein kinase BTK