SMTL ID : 6dxt.1 (1 other biounit)

Structure of USP5 zinc-finger ubiquitin binding domain co-crystallized with 3-(5-phenyl-1,3,4-oxadiazol-2-yl)propanoate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

monomer

Ligands

1 x HHY: 3-(5-phenyl-1,3,4-oxadiazol-2-yl)propanoic acid(Non-covalent)

HHY.1: 10 residues within 4Å: Chain A: W.40, G.51, R.52, A.64, V.65, Y.90, Y.92, D.95, D.96, M.97 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:W.40, A:Y.90, A:Y.90, A:Y.92 Hydrogen bonds: A:R.52, A:R.52, A:V.65, A:Y.92, A:Y.92 Salt bridges: A:R.52 pi-Stacking: A:Y.90

2 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.2: 4 residues within 4Å: Chain A: N.42, A.64, H.67, Y.68 No protein-ligand interaction detected (PLIP) UNX.3: 3 residues within 4Å: Chain A: R.36, E.37, N.38 No protein-ligand interaction detected (PLIP)

1 x ZN: ZINC ION(Non-covalent)

ZN.4: 4 residues within 4Å: Chain A: C.30, C.33, C.50, H.63 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.30, A:C.33, A:C.50, A:H.63

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mann, M.K. et al., Discovery of Small Molecule Antagonists of the USP5 Zinc Finger Ubiquitin-Binding Domain. J.Med.Chem. (2019)

Release Date

2018-08-08

Peptides

Ubiquitin carboxyl-terminal hydrolase 5: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Ubiquitin carboxyl-terminal hydrolase 5

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