SMTL ID : 6ml1.1 (2 other biounits)

Structure of the USP15 deubiquitinase domain in complex with an affinity-matured inhibitory Ubv

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 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.2 CA.2: 2 residues within 4Å: Chain A: C.285, R.344 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:C.285, H2O.6 CA.6: 2 residues within 4Å: Chain B: K.36, E.37 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:K.36

1 x ZN: ZINC ION(Non-covalent)

ZN.3: 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.4: 2 residues within 4Å: Chain A: L.63, G.64 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.63 NA.5: 5 residues within 4Å: Chain A: K.208, L.209, K.210, D.274, P.276 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.209, A:K.210, A:D.274

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.7: 4 residues within 4Å: Chain B: N.28, A.31, K.32, D.35 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.35 Salt bridges: B:D.35

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,Ubiquitin carboxyl-terminal hydrolase 15,Ubiquitin carboxyl-terminal hydrolase 15: A
Ubiquitin variant 15.1a: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Ubiquitin carboxyl-terminal hydrolase 15,Ubiquitin carboxyl-terminal hydrolase 15,Ubiquitin carboxyl-terminal hydrolase 15

Ubiquitin variant 15.1a

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