SMTL ID : 6x3p.1

Co-structure of BTK kinase domain with L-005298385 inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.34 Å

Oligo State

monomer

Ligands

2 x UM4: 4-{8-amino-3-[(6R,8aS)-3-oxooctahydroindolizin-6-yl]imidazo[1,5-a]pyrazin-1-yl}-3-(cyclopropyloxy)-N-[4-(trifluoromethyl)pyridin-2-yl]benzamide(Non-covalent)

UM4.1: 26 residues within 4Å: Chain A: L.20, G.21, T.22, G.23, V.28, A.40, K.42, F.54, A.58, M.61, L.72, I.84, T.86, E.87, Y.88, M.89, G.92, C.93, N.96, R.137, N.138, L.140, S.150, D.151, F.152, L.154 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:V.28, A:K.42, A:L.72, A:L.72, A:I.84, A:T.86, A:L.154, A:L.154 Hydrogen bonds: A:E.87, A:M.89, A:C.93, A:S.150, A:D.151, A:D.151 pi-Cation interactions: A:K.42 UM4.2: 9 residues within 4Å: Chain A: W.7, W.33, Y.37, V.39, M.62, N.63, S.65, Q.71, Y.73 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:W.7, A:Q.71, A:Y.73 Hydrogen bonds: A:M.62, A:S.65, A:Q.71 Water bridges: A:L.72 pi-Stacking: A:W.33

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

EDO.3: 6 residues within 4Å: Chain A: Q.24, D.133, N.138, D.151, S.155, V.158 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.24, A:D.133, A:N.138, A:D.151 Water bridges: A:S.155

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

BTB.4: 6 residues within 4Å: Chain A: E.57, V.60, K.127, Q.128, F.129, R.156 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.156, A:R.156 Water bridges: A:E.57, A:K.127 Salt bridges: A:E.57

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, J. et al., Potent, non-covalent reversible BTK inhibitors with 8-amino-imidazo[1,5-a]pyrazine core featuring 3-position bicyclic ring substitutes. Bioorg.Med.Chem.Lett. (2020)

Release Date

2020-07-22

Peptides

Tyrosine-protein kinase BTK: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Tyrosine-protein kinase BTK

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