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SMTL ID : 6qml.2 (1 other biounit)

UCHL3 in complex with synthetic, K27-linked diubiquitin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

hetero-1-1-1-mer

Ligands

3 x K: POTASSIUM ION(Non-covalent)

K.1:	4 residues within 4Å: Chain A: N.103, N.104, H.172 Ligands: CL.8 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:N.103, A:H.172, H₂O.1
K.2:	2 residues within 4Å: Chain A: N.137, D.139 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:N.137, A:D.139, H₂O.2
K.3:	1 residues within 4Å: Chain A: D.139 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.139

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

EDO.4:	6 residues within 4Å: Chain A: S.79, S.80, V.81, Y.82, V.124, R.131 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:V.81, A:R.131, A:R.131 Water bridges: A:F.83
EDO.5:	5 residues within 4Å: Chain A: V.77, F.83, P.128, F.186, P.187 No protein-ligand interaction detected (PLIP)
EDO.6:	8 residues within 4Å: Chain A: R.44, P.45, V.46, D.195, E.196, L.198, L.199, E.200 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:V.46, A:L.199, A:E.200
EDO.7:	1 residues within 4Å: Chain A: Q.73 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.73, A:Q.73
EDO.10:	7 residues within 4Å: Chain A: E.146 Chain C: I.44, F.45, A.46, G.47, T.66, H.68 5 PLIP interactions: 3 interactions with chain C, 2 interactions with chain A Hydrogen bonds: C:A.46, C:G.47, C:T.66, A:E.146, A:E.146
EDO.11:	3 residues within 4Å: Chain C: K.6, T.66, H.68 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:K.6, C:K.6

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.8:

4 residues within 4Å:

Chain A: N.104, D.106, K.107
Ligands: K.1

Ligand excluded by PLIP

1 x BR: BROMIDE ION(Non-covalent)

BR.9:

3 residues within 4Å:

Chain C: L.15, E.16, K.29

Ligand excluded by PLIP

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

van Tilburg, G.B.A. et al., K27-Linked Diubiquitin Inhibits UCHL3 via an Unusual Kinetic Trap. Cell Chem Biol (2021)

Release Date

2020-02-26

Peptides

Ubiquitin carboxyl-terminal hydrolase isozyme L3: A
Polyubiquitin-B: B
Polyubiquitin-C: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
E

C
F

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

Ubiquitin carboxyl-terminal hydrolase isozyme L3

Polyubiquitin-B

Polyubiquitin-C

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Background

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