SMTL ID : 5n9r.2 (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 2.23 Å

Oligo State

monomer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: G.70, T.71, K.72, K.73 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:G.70, A:K.72, A:K.73 Water bridges: A:G.70, A:G.70, A:T.71, A:L.74 Salt bridges: A:K.12, A:K.73 SO4.2: 4 residues within 4Å: Chain A: G.270, T.284, K.285, E.286 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.285

1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.3: 4 residues within 4Å: Chain A: D.90, F.204, N.213 Ligands: 8RN.6 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:D.90

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 5 residues within 4Å: Chain A: Q.92, E.93, R.96, D.144, Q.146 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.146, A:Q.146 Water bridges: A:E.93, A:D.144, A:D.144 GOL.5: 6 residues within 4Å: Chain A: F.29, N.31, R.34, Q.63, A.325, V.326 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.34, A:R.34, A:V.326 Water bridges: A:N.31, A:Q.63

1 x 8RN: 7-bromanyl-3-[[4-oxidanyl-1-[(3~{R})-3-phenylbutanoyl]piperidin-4-yl]methyl]thieno[3,2-d]pyrimidin-4-one(Non-covalent)

8RN.6: 18 residues within 4Å: Chain A: Y.19, D.90, V.91, Q.92, Q.146, L.201, M.202, R.203, F.204, M.205, K.215, H.251, D.254, N.255, H.256, Y.260, Y.309 Ligands: DMS.3 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:V.91, A:R.203, A:F.204, A:F.204, A:K.215, A:H.251, A:Y.309, A:Y.309 Hydrogen bonds: A:D.90, A:V.91, A:Q.92, A:R.203, A:F.204, A:Y.260

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
B

Ubiquitin carboxyl-terminal hydrolase 7

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