SMTL ID : 8ftq.1

Crystal structure of hRpn13 Pru domain in complex with Ubiquitin and XL44

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

hetero-2-2-mer

Ligands

2 x ZTO: N-(3-{[(3R)-5-fluoro-2-oxo-2,3-dihydro-1H-indol-3-yl]methyl}phenyl)-4-methoxybenzamide(Covalent)(Non-covalent)

ZTO.1: 14 residues within 4Å: Chain A: M.30, S.31, L.32, V.37, P.39, K.41, V.84, Q.86, C.87, P.88, S.89, V.92, F.105, W.107 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.32, A:P.39, A:P.39, A:F.105, A:F.105 Hydrogen bonds: A:Q.86 pi-Stacking: A:W.107 ZTO.2: 14 residues within 4Å: Chain B: M.30, S.31, L.32, V.37, P.39, K.41, V.84, Q.86, C.87, P.88, S.89, V.92, F.105, W.107 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:L.32, B:V.37, B:P.39, B:P.39, B:P.88, B:F.105, B:F.105 pi-Stacking: B:W.107

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lu, X. et al., A structure-based designed small molecule depletes hRpn13 Pru and a select group of KEN box proteins. Nat Commun (2024)

Release Date

2024-03-27

Peptides

Proteasomal ubiquitin receptor ADRM1: AB
Ubiquitin: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Proteasomal ubiquitin receptor ADRM1

Ubiquitin

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