SMTL ID : 9gy3.2 (1 other biounit)

Crystal structure of CRBNmidi in complex with (S)-dHTC1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

monomer

Ligands

1 x 01: 2-[3-[2-[4-[[(5~{S})-1,3-bis(oxidanylidene)-2,7-diazaspiro[4.4]nonan-7-yl]sulfonylamino]piperidin-1-yl]ethylcarbamoyl]phenyl]-~{N}-cyclobutyl-imidazo[1,2-a]pyridine-6-carboxamide

01.1: 11 residues within 4Å: Chain A: N.254, P.255, H.256, H.281, S.282, W.283, W.289, V.291, H.300, W.303, F.305 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:W.283, A:W.289, A:W.289, A:V.291 Hydrogen bonds: A:N.254, A:H.281, A:W.283 pi-Cation interactions: A:H.300

1 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: C.226, C.229, C.294, C.297 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.226, A:C.229, A:C.294, A:C.297

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shaum, J.B. et al., High-throughput diversification of protein-ligand surfaces to discover chemical inducers of proximity. Biorxiv (2025)

Release Date

2025-10-01

Peptides

Protein cereblon: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Protein cereblon

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