SMTL ID : 8qnh.1

Crystal structure of the E3 ubiquitin ligase Cbl-b with an allosteric inhibitor (WO2020264398 Ex23)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x Z3N: 2-{3-[(1s,3R)-3-methyl-1-(4-methyl-4H-1,2,4-triazol-3-yl)cyclobutyl]phenyl}-6-{[(3S)-3-methylpiperidin-1-yl]methyl}-4-(trifluoromethyl)-2,3-dihydro-1H-isoindol-1-one(Non-covalent)

Z3N.1: 17 residues within 4Å: Chain A: P.38, R.108, T.111, K.112, L.115, S.185, T.186, L.189, Y.227, A.229, F.230, T.232, E.235, L.254, Y.330, M.333, G.334 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:T.111, A:L.115, A:T.186, A:L.189, A:F.230, A:T.232 Hydrogen bonds: A:F.230 Salt bridges: A:E.235 pi-Stacking: A:Y.330

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: C.340, C.343, C.360, C.363 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.340, A:C.343, A:C.360, A:C.363 ZN.3: 4 residues within 4Å: Chain A: C.355, H.357, C.375, C.378 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.355, A:H.357, A:C.375, A:C.378

1 x NA: SODIUM ION(Non-functional Binders)

NA.4: 5 residues within 4Å: Chain A: D.188, T.190, N.192, Y.194, E.199 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.190, A:T.190 Water bridges: A:N.192

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Boerth, J.A. et al., Discovery of a Novel Benzodiazepine Series of Cbl-b Inhibitors for the Enhancement of Antitumor Immunity. Acs Med.Chem.Lett. (2023)

Release Date

2023-11-22

Peptides

E3 ubiquitin-protein ligase CBL-B: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

E3 ubiquitin-protein ligase CBL-B

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