Research workbench
Crystal structure of hoil-1L-ubl complexed with a hoip-uba derivative
Analyse Crystal structure of hoil-1L-ubl complexed with a hoip-uba derivative in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4DBG
- Type
- protein
- Length
- 228 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ranbp-type and C3HC4-type zinc finger-containing protein 1; Ring finger protein 31
- EC
- 6.3.2.-
- UniProt
- Q9BYM8, Q96EP0
- Pockets
- 2 · best druggability 0.50
Structure
x-ray diffraction · 2 distinct chains · 54% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ranbp-type and C3HC4-type zinc finger-containing protein 1 (EC 6.3.2.-) | protein | 82 | 22% helix, 39% strand | Q9BYM8 |
| B | Ring finger protein 31 (EC 6.3.2.-) | protein | 146 | 72% helix, 0% strand | Q96EP0 |
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 | 161 | 0.50 | 0.78 | 35 | empty |
| 2 | 53 | 0.38 | 0.80 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 858 Ų buried · 7 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 4DBG · Crystal structure of HOIL-1L-UBL complexed with a HOIP-UBA derivative · the same entry in another collection · chain A against A, TM-score 1.00
- Q9BYM8 · AlphaFold monomer V2.0 prediction for ranbp-type and C3HC4-type zinc finger-containing… · a predicted model of the same protein · chain A against A, TM-score 0.97
- 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 0.68
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 Q9BYM8
- Every structure of UniProt Q96EP0
- Elsewhere: RCSB PDB 4DBG · PDBe 4DBG · UniProt Q9BYM8 · UniProt Q96EP0
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