SMTL ID : 7l5o.1

Crystal structure of the noncovalently bonded complex of rilzabrutinib with BTK

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.21 Å

Oligo State

monomer

Ligands

1 x R1L: (2E)-2-{(3R)-3-[4-amino-3-(2-fluoro-4-phenoxyphenyl)-1H-pyrazolo[3,4-d]pyrimidin-1-yl]piperidine-1-carbonyl}-4-methyl-4-[4-(oxetan-3-yl)piperazin-1-yl]pent-2-enenitrile(Non-covalent)

R1L.1: 18 residues within 4Å: Chain A: L.20, G.21, V.28, A.40, K.42, M.61, T.86, E.87, Y.88, M.89, G.92, C.93, N.96, L.140, S.150, D.151, F.152, L.154 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:V.28, A:K.42, A:F.152, A:L.154 Hydrogen bonds: A:E.87, A:M.89, A:C.93 pi-Cation interactions: A:K.42

1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.2: 2 residues within 4Å: Chain A: T.15, F.16 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:F.16

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.3: 3 residues within 4Å: Chain A: W.33, Y.37, Y.73 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.73, A:Y.73 Water bridges: A:Y.73

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

EDO.4: 4 residues within 4Å: Chain A: Y.210, E.211, R.212, F.213 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.210, A:R.212 Water bridges: A:Y.210, A:Y.210, A:E.211 EDO.7: 5 residues within 4Å: Chain A: D.133, D.151, L.154, S.155, V.158 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.133, A:D.151 Water bridges: A:N.138, A:N.138, A:L.154, A:S.155

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

SO4.5: 2 residues within 4Å: Chain A: G.1, R.34 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.1 Water bridges: A:R.34, A:R.34, A:R.34 Salt bridges: A:R.34

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

ACT.6: 3 residues within 4Å: Chain A: A.90, N.91, G.92 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Owens, T.D., The Discovery Rilzabrutinib (PRN1008): A Reversible Covalent BTK Inhibitor for Immune Mediated Diseases. To Be Published

Release Date

2022-06-29

Peptides

Tyrosine-protein kinase BTK: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Tyrosine-protein kinase BTK

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