SMTL ID : 5n9t.1 (1 other biounit)

Crystal structure of USP7 in complex with a potent, selective and reversible small-molecule inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.73 Å

Oligo State

monomer

Ligands

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

SO4.1: 6 residues within 4Å: Chain A: Q.13, R.56, G.69, T.70, K.71, K.72 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Q.13, A:K.71, A:K.72 Water bridges: A:K.11, A:R.56, A:L.73 Salt bridges: A:R.56

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 3 residues within 4Å: Chain A: R.134, K.188, Q.232 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.134, A:R.134 GOL.3: 6 residues within 4Å: Chain A: S.124, Y.125, I.126, S.135, D.136, R.137 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.135, A:K.185, A:K.185 GOL.4: 4 residues within 4Å: Chain A: D.89, F.203, N.212 Ligands: 8QQ.5 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.89 Water bridges: A:D.89

1 x 8QQ: 3-[4-(aminomethyl)phenyl]-2-methyl-6-[[4-oxidanyl-1-[(3~{R})-4,4,4-tris(fluoranyl)-3-phenyl-butanoyl]piperidin-4-yl]methyl]pyrazolo[4,3-d]pyrimidin-7-one(Non-covalent)

8QQ.5: 19 residues within 4Å: Chain A: Y.18, D.89, V.90, Q.91, Q.145, Q.199, L.200, M.201, R.202, F.203, M.204, K.214, H.250, D.253, N.254, H.255, Y.259, Y.308 Ligands: GOL.4 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:Q.145, A:Q.145, A:R.202, A:F.203, A:K.214, A:K.214, A:H.250, A:Y.308, A:Y.308 Hydrogen bonds: A:V.90, A:Q.91, A:Q.145, A:R.202, A:F.203

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gavory, G. et al., Discovery and characterization of highly potent and selective allosteric USP7 inhibitors. Nat. Chem. Biol. (2018)

Release Date

2017-12-06

Peptides

Ubiquitin carboxyl-terminal hydrolase 7: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Ubiquitin carboxyl-terminal hydrolase 7

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