Research workbench
Solution-state NMR structural ensemble of human TSG101 uev in complex with K63-linked diubiquitin
Analyse Solution-state NMR structural ensemble of human TSG101 uev in complex with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6UD0
- Type
- protein
- Length
- 294 residues
- Chains
- 3
- Method
- solution nmr
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ubiquitin; Tumor susceptibility gene 101 protein
- UniProt
- P0CG47, Q99816
- Pockets
- 5 · best druggability 0.68
Structure
solution nmr · 3 distinct chains · 25% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ubiquitin | protein | 76 | 22% helix, 32% strand | P0CG47 |
| B | Ubiquitin | protein | 77 | 22% helix, 31% strand | P0CG47 |
| C | Tumor susceptibility gene 101 protein | protein | 141 | 28% helix, 29% strand | Q99816 |
Pockets
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 436 | 0.68 | 0.80 | 62 | empty |
| 2 | 58 | 0.52 | 0.87 | 19 | empty |
| 3 | 63 | 0.50 | 0.85 | 13 | empty |
| 4 | 93 | 0.46 | 0.81 | 24 | empty |
| 5 | 168 | 0.45 | 0.75 | 33 | empty |
Interfaces
3 interfaces between chains.
- A–C · 737 Ų buried · 11 hydrogen bonds · protein-protein
- B–C · 332 Ų buried · 2 hydrogen bonds · protein-protein
- A–B · 299 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 isopeptide (isopeptide).
Compared structures
- 6UD0 · Solution-state NMR structural ensemble of human Tsg101 UEV in complex with K63-linked… · the same entry in another collection · chain A against A, TM-score 1.00
- Q99816 · AlphaFold monomer V2.0 prediction for tumor susceptibility gene 101 protein (Q99816) · a predicted model of the same protein · chain C against A, TM-score 0.97
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 Q99816
- Elsewhere: RCSB PDB 6UD0 · PDBe 6UD0 · UniProt P0CG47 · UniProt Q99816
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