Research workbench
Crystal structure of the pub domain of E3 ubiquitin ligase RNF31
Analyse Crystal structure of the pub domain of E3 ubiquitin ligase RNF31 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4JUY
- Type
- protein
- Length
- 381 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- E3 ubiquitin-protein ligase RNF31
- UniProt
- Q96EP0
- Ligands
- UNX
- Pockets
- 3 · best druggability 0.65
Structure
x-ray diffraction · 2 distinct chains · 55% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | E3 ubiquitin-protein ligase RNF31 | protein | 193 | 54% helix, 4% strand | Q96EP0 |
| B | E3 ubiquitin-protein ligase RNF31 | protein | 188 | 56% helix, 4% strand | Q96EP0 |
Ligands and binding sites
- UNX · Unknown atom or ion · ion · 10 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 651 | 0.65 | 0.75 | 56 | empty |
| 2 | 93 | 0.44 | 0.79 | 18 | empty |
| 3 | 59 | 0.40 | 0.80 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 347 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 4JUY · Crystal structure of the PUB domain of E3 ubiquitin ligase RNF31 · the same entry in another collection · chain A against A, TM-score 1.00
- Q96EP0 · AlphaFold monomer V2.0 prediction for E3 ubiquitin-protein ligase RNF31 (Q96EP0) · a predicted model of the same protein · chain B against A, TM-score 0.92
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 Q96EP0
- Elsewhere: RCSB PDB 4JUY · PDBe 4JUY · UniProt Q96EP0
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