Research workbench
HRPN13:HRPN2:K48-diubiquitin
Analyse HRPN13:HRPN2:K48-diubiquitin in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6UYJ
- Type
- protein
- Length
- 280 residues
- Chains
- 4
- Method
- solution nmr
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ubiquitin; Proteasomal ubiquitin receptor ADRM1; 26S proteasome non-ATPase regulatory…
- UniProt
- P0CG47, Q16186, Q99460
- Pockets
- 2 · best druggability 0.38
Structure
solution nmr · 4 distinct chains · 15% helix, 38% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C | Ubiquitin | protein | 77 | 19% helix, 27% strand | P0CG47 |
| D | Ubiquitin | protein | 76 | 20% helix, 32% strand | P0CG47 |
| A | Proteasomal ubiquitin receptor ADRM1 | protein | 113 | 12% helix, 52% strand | Q16186 |
| B | 26S proteasome non-ATPase regulatory subunit 1 | protein | 14 | 0% helix, 14% strand | Q99460 |
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 93 | 0.38 | 0.76 | 18 | empty |
| 2 | 60 | 0.31 | 0.75 | 15 | empty |
Interfaces
4 interfaces between chains.
- A–B · 829 Ų buried · 10 hydrogen bonds · protein-protein
- D–A · 438 Ų buried · 3 hydrogen bonds · protein-protein
- C–D · 225 Ų buried · 5 hydrogen bonds · protein-protein
- C–A · 70 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 1 isopeptide (isopeptide).
Compared structures
- 6UYJ · hRpn13:hRpn2:K48-diubiquitin · the same entry in another collection · chain C against C, TM-score 1.00
- Q16186 · AlphaFold monomer V2.0 prediction for proteasomal ubiquitin receptor ADRM1 (Q16186) · a predicted model of the same protein · chain A against A, TM-score 0.93
- Q99460 · AlphaFold monomer V2.0 prediction for 26S proteasome non-ATPase regulatory subunit 1… · a predicted model of the same protein · chain B against A, TM-score 0.26
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt P0CG47
- Every structure of UniProt Q16186
- Every structure of UniProt Q99460
- Elsewhere: RCSB PDB 6UYJ · PDBe 6UYJ · UniProt P0CG47 · UniProt Q16186 · UniProt Q99460
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.