SMTL ID : 7ms7.1 (1 other biounit)

Structure of USP5 zinc-finger ubiquitin binding domain co-crystallized with (5-((4-(4-chlorophenyl)piperidin-1-yl)sulfonyl)picolinoyl)glycine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 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

1 x ZQ1: N-{5-[4-(4-chlorophenyl)piperidine-1-sulfonyl]pyridine-2-carbonyl}glycine(Non-covalent)

ZQ1.2: 11 residues within 4Å: Chain A: W.40, G.51, R.52, Y.54, D.56, S.58, A.64, V.65, Y.90, Y.92, M.97 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:R.52, A:R.52, A:V.65, A:Y.92, A:Y.92 Water bridges: A:Y.54, A:Y.90 Salt bridges: A:R.52 pi-Stacking: A:Y.54, A:Y.90

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

EDO.3: 4 residues within 4Å: Chain A: D.85, G.86, A.87, V.98 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.85, A:A.87, A:V.98 Water bridges: A:R.5, A:R.5

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.4: 1 residues within 4Å: Chain A: L.17 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.17

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mann, M.K. et al., Structure-Activity Relationship of USP5 Inhibitors. J.Med.Chem. (2021)

Release Date

2021-06-09

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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