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

Structure of the USP15 deubiquitinase domain in complex with a third-generation inhibitory Ubv

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.01 Å

Oligo State

hetero-1-1-mer

Ligands

3 x CA: CALCIUM ION(Non-covalent)

CA.1: 2 residues within 4Å: Chain A: D.279, Q.345 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.279, A:D.279, H2O.1 CA.2: 2 residues within 4Å: Chain A: I.277, E.329 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.329, H2O.4 CA.3: 3 residues within 4Å: Chain A: P.42, I.290, Q.343 No protein-ligand interaction detected (PLIP)

1 x ZN: ZINC ION(Non-covalent)

ZN.4: 4 residues within 4Å: Chain A: C.179, C.182, C.230, C.233 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.179, A:C.182, A:C.230, A:C.233

2 x NA: SODIUM ION(Non-functional Binders)

NA.5: 2 residues within 4Å: Chain A: E.225, D.226 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.225 NA.8: 2 residues within 4Å: Chain B: A.32, D.36 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.36

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 6 residues within 4Å: Chain A: F.173, Y.194, L.195, T.196, F.216 Chain B: T.52 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:T.196, A:T.196, B:T.52

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

EDO.7: 2 residues within 4Å: Chain A: E.181, E.235 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.181

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Teyra, J. et al., Structural and Functional Characterization of Ubiquitin Variant Inhibitors of USP15. Structure (2019)

Release Date

2019-01-23

Peptides

Ubiquitin carboxyl-terminal hydrolase 15: A
Ubiquitin variant 15.1d: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
F

Ubiquitin carboxyl-terminal hydrolase 15

Ubiquitin variant 15.1d

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