SMTL ID : 9yc2.1

Crystal structure of USP49 ZnF-UBP domain

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

monomer

Ligands

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 3 residues within 4Å: Chain A: W.26, R.72, R.105 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.72, A:R.105 SO4.2: 8 residues within 4Å: Chain A: S.36, W.38, G.49, R.50, Y.51, I.52, E.70 Ligands: GOL.3 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.36, A:W.38, A:G.49, A:R.50, A:Y.51 Water bridges: A:S.36

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 10 residues within 4Å: Chain A: W.38, G.49, R.50, D.54, A.56, L.57, F.77, Y.79, Y.84 Ligands: SO4.2 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.50, A:R.50, A:D.54, A:L.57, A:Y.84

3 x ZN: ZINC ION(Non-covalent)

ZN.4: 5 residues within 4Å: Chain A: C.6, K.7, H.8, C.78, C.81 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.6, A:H.8, A:C.78, A:C.81 ZN.5: 6 residues within 4Å: Chain A: C.40, K.42, C.43, H.45, H.59, H.65 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.40, A:C.43, A:H.59, A:H.65 ZN.6: 7 residues within 4Å: Chain A: C.28, E.30, C.31, T.33, C.48, E.53, H.55 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.28, A:C.31, A:C.48, A:H.55

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Alexandrovics, J.A. et al., The ZnF-UBP domain regulates USP16 activity by dislodging ubiquitin from the active site. To Be Published

Release Date

2025-10-29

Peptides

Ubiquitin carboxyl-terminal hydrolase 49: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Ubiquitin carboxyl-terminal hydrolase 49