SMTL ID : 4ci3.1

Structure of the DDB1-CRBN E3 ubiquitin ligase bound to Pomalidomide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.50 Å

Oligo State

hetero-1-1-mer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain B: C.349, C.352, C.417, C.420 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.349, B:C.352, B:C.417, B:C.420

1 x Y70: S-Pomalidomide(Non-covalent)

Y70.2: 12 residues within 4Å: Chain B: V.376, N.377, P.378, H.379, H.383, E.403, H.404, S.405, W.406, W.412, W.426, F.428 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:N.377, B:P.378, B:W.406, B:W.412, B:W.412, B:W.426, B:F.428 Hydrogen bonds: B:N.377, B:H.404, B:H.404, B:W.406

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fischer, E.S. et al., Structure of the Ddb1-Crbn E3 Ubiquitin Ligase in Complex with Thalidomide. Nature (2014)

Release Date

2014-07-16

Peptides

DNA DAMAGE-BINDING PROTEIN 1: A
PROTEIN CEREBLON: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

DNA DAMAGE-BINDING PROTEIN 1

PROTEIN CEREBLON

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