SMTL ID : 5o6t.1 (1 other biounit)

BIRC4 RING in complex with dimeric ubiquitin variant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.57 Å

Oligo State

homo-dimer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: C.19, I.21, C.22, R.25, C.40, C.43 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.19, A:C.22, A:C.40, A:C.43 ZN.2: 7 residues within 4Å: Chain A: F.31, C.34, H.36, C.50, M.52, C.53, T.55 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.34, A:H.36, A:C.50, A:C.53 ZN.4: 6 residues within 4Å: Chain B: C.19, I.21, C.22, R.25, C.40, C.43 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.19, B:C.22, B:C.40, B:C.43 ZN.5: 7 residues within 4Å: Chain B: F.31, C.34, H.36, C.50, M.52, C.53, T.55 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.34, B:H.36, B:C.50, B:C.53

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 4 residues within 4Å: Chain A: F.64, M.65, S.66 Chain B: H.36 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:M.65, A:S.66, A:S.66, A:S.66 Water bridges: B:H.36 EDO.6: 3 residues within 4Å: Chain B: F.64, M.65, S.66 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:M.65, B:S.66, B:S.66 Water bridges: A:H.36

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gabrielsen, M. et al., A General Strategy for Discovery of Inhibitors and Activators of RING and U-box E3 Ligases with Ubiquitin Variants. Mol. Cell (2017)

Release Date

2017-11-01

Peptides

E3 ubiquitin-protein ligase XIAP: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

E3 ubiquitin-protein ligase XIAP