SMTL ID : 8ou7.3 (2 other biounits)

Cereblon isoform 4 in complex with novel Benzamide-Type Cereblon Binder 11d

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 8 residues within 4Å: Chain A: C.24, Q.26, C.27, Q.29, C.90, Q.92, C.93, S.95 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.24, A:C.27, A:C.90, A:C.93

1 x W1F: 4-azanyl-~{N}-[(3~{S})-2,6-bis(oxidanylidene)piperidin-3-yl]-2-methoxy-benzamide(Non-covalent)

W1F.2: 10 residues within 4Å: Chain A: N.50, P.51, F.56, E.76, F.77, S.78, W.79, W.85, W.99, Y.101 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:W.79, A:W.85, A:W.85, A:W.99, A:W.99 Hydrogen bonds: A:N.50, A:F.77, A:W.79 Water bridges: A:W.99

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Steinebach, C. et al., Leveraging Ligand Affinity and Properties: Discovery of Novel Benzamide-Type Cereblon Binders for the Design of PROTACs. J.Med.Chem. (2023)

Release Date

2023-11-15

Peptides

Cereblon isoform 4: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Cereblon isoform 4

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