SMTL ID : 6r0u.2 (2 other biounits)

Cereblon isoform 4 from Magnetospirillum gryphiswaldense in complex with compound 5a and hydrolysis product

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.25, C.28, C.91, C.94 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.25, A:C.28, A:C.91, A:C.94

1 x JO8: 3-azanyl-2-[[(3~{S})-2,5-bis(oxidanylidene)pyrrolidin-3-yl]carbamoyl]benzoic acid(Non-covalent)

JO8.2: 11 residues within 4Å: Chain A: N.51, P.52, F.78, S.79, W.80, W.86, I.88, H.97, W.100, Y.102 Ligands: PO4.3 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:W.80, A:W.86 Hydrogen bonds: A:N.51, A:F.78, A:W.80, A:W.100 Salt bridges: A:H.97

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.3: 4 residues within 4Å: Chain A: F.57, H.97, R.118 Ligands: JO8.2 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:H.97, A:R.118

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 2 residues within 4Å: Chain A: R.58, D.117 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Heim, C. et al., De-Novo Design of Cereblon (CRBN) Effectors Guided by Natural Hydrolysis Products of Thalidomide Derivatives. J.Med.Chem. (2019)

Release Date

2019-08-07

Peptides

Cereblon isoform 4: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Cereblon isoform 4

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