Research workbench
RING1B C-terminal DOMAIN/CBX7 cbox complex
Analyse RING1B C-terminal DOMAIN/CBX7 cbox complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3GS2
- Type
- protein
- Length
- 276 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- E3 ubiquitin-protein ligase RING2; Chromobox protein homolog 7
- EC
- 6.3.2.-
- UniProt
- Q99496, O95931
- Ligands
- ZN, SO4
- Pockets
- 4 · best druggability 0.58
Structure
x-ray diffraction · 4 distinct chains · 22% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | E3 ubiquitin-protein ligase RING2 (EC 6.3.2.-) | protein | 109 | 28% helix, 29% strand | Q99496 |
| B | Chromobox protein homolog 7 | protein | 30 | 0% helix, 50% strand | O95931 |
| C | E3 ubiquitin-protein ligase RING2 (EC 6.3.2.-) | protein | 108 | 29% helix, 30% strand | Q99496 |
| D | Chromobox protein homolog 7 | protein | 29 | 0% helix, 52% strand | O95931 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 212 | 0.58 | 0.80 | 33 | empty |
| 2 | 74 | 0.40 | 0.79 | 13 | empty |
| 3 | 107 | 0.39 | 0.76 | 21 | empty |
| 4 | 62 | 0.31 | 0.76 | 15 | ZN, SO4 |
Interfaces
5 interfaces between chains.
- A–B · 1070 Ų buried · 19 hydrogen bonds · protein-protein
- C–D · 1048 Ų buried · 20 hydrogen bonds · protein-protein
- A–C · 926 Ų buried · 11 hydrogen bonds · protein-protein
- B–C · 269 Ų buried · 3 hydrogen bonds · protein-protein
- A–D · 251 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 3GS2 · Ring1B C-terminal domain/Cbx7 Cbox Complex · the same entry in another collection · chain D against D, 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 A against A, TM-score 0.89
- O95931 · AlphaFold monomer V2.0 prediction for chromobox protein homolog 7 (O95931) · a predicted model of the same protein · chain B against A, TM-score 0.50
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 Q99496
- Every structure of UniProt O95931
- Elsewhere: RCSB PDB 3GS2 · PDBe 3GS2 · UniProt Q99496 · UniProt O95931
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