Research workbench
Structure of a bmi-1-RING1B polycomb group ubiquitin ligase complex
Analyse Structure of a bmi-1-RING1B polycomb group ubiquitin ligase complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2H0D
- Type
- protein
- Length
- 197 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- B lymphoma mo-mlv insertion region; Ubiquitin ligase protein RING2
- EC
- 6.3.2.-
- UniProt
- Q5T8Z3, Q99496
- Ligands
- ZN
- Pockets
- 1 · best druggability 0.31
Structure
x-ray diffraction · 2 distinct chains · 37% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | B lymphoma mo-mlv insertion region | protein | 97 | 44% helix, 15% strand | Q5T8Z3 |
| B | Ubiquitin ligase protein RING2 (EC 6.3.2.-) | protein | 100 | 30% helix, 17% strand | Q99496 |
Ligands and binding sites
- ZN · Zinc ion · metal · 4 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 53 | 0.31 | 0.76 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 2311 Ų buried · 33 hydrogen bonds · protein-protein
Compared structures
- 2H0D · Structure of a Bmi-1-Ring1B Polycomb group ubiquitin ligase complex · the same entry in another collection · chain A against A, TM-score 1.00
- Q99496 · AlphaFold monomer V2.0 prediction for E3 ubiquitin-protein ligase RING2 (Q99496) · 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 Q5T8Z3
- Every structure of UniProt Q99496
- Elsewhere: RCSB PDB 2H0D · PDBe 2H0D · UniProt Q5T8Z3 · UniProt Q99496
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.