SMTL ID : 9dqd.1

cryo-EM structure of human Cereblon/DDB1 in complex with a non-traditional CRBN binder

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-mer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.348, C.351, C.416, C.419 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.348, A:C.351, A:C.416, A:C.419

1 x 01: (3R)-3-{1-methyl-6-[(piperidin-4-yl)amino]-1H-indazol-3-yl}piperidine-2,6-dione

01.2: 9 residues within 4Å: Chain A: N.376, P.377, E.402, H.403, S.404, W.405, W.411, W.425, F.427 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:P.377, A:W.405, A:W.411, A:W.425, A:W.425 Hydrogen bonds: A:N.376, A:W.405, A:W.405

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lejava, A. et al., Development of a Buchwald-Hartwig Amination for an Accelerated Library Synthesis of Cereblon Binders. Acs Med.Chem.Lett. (2024)

Release Date

2024-12-25

Peptides

Protein cereblon: A
DNA damage-binding protein 1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protein cereblon

DNA damage-binding protein 1

Related Entries With Identical Sequence