Research workbench
SOX2 bound to importin-alpha 3
Analyse SOX2 bound to importin-alpha 3 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6WX8
- Type
- protein
- Length
- 999 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Importin subunit alpha-3; Transcription factor sox-2
- UniProt
- O00629, P48431
- Ligands
- SO4
- Pockets
- 11 · best druggability 0.75
Structure
x-ray diffraction · 4 distinct chains · 72% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Importin subunit alpha-3 | protein | 419 | 74% helix, 0% strand | O00629 |
| B | Transcription factor sox-2 | protein | 82 | 62% helix, 0% strand | P48431 |
| C | Importin subunit alpha-3 | protein | 417 | 76% helix, 0% strand | O00629 |
| D | Transcription factor sox-2 | protein | 81 | 59% helix, 0% strand | P48431 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 5 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
11 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 769 | 0.75 | 0.80 | 81 | empty |
| 2 | 525 | 0.69 | 0.79 | 41 | empty |
| 3 | 473 | 0.68 | 0.79 | 40 | empty |
| 4 | 370 | 0.64 | 0.79 | 32 | empty |
| 5 | 361 | 0.64 | 0.79 | 41 | SO4 |
Interfaces
3 interfaces between chains.
- C–D · 2136 Ų buried · 36 hydrogen bonds · protein-protein
- A–B · 2050 Ų buried · 38 hydrogen bonds · protein-protein
- A–C · 663 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 6WX8 · SOX2 bound to Importin-alpha 3 · the same entry in another collection · chain D against D, TM-score 1.00
- O00629 · AlphaFold monomer V2.0 prediction for importin subunit alpha-3 (O00629) · a predicted model of the same protein · chain C against A, TM-score 0.99
- P48431 · AlphaFold monomer V2.0 prediction for transcription factor sox-2 (P48431) · a predicted model of the same protein · chain D against A, TM-score 0.75
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 O00629
- Every structure of UniProt P48431
- Elsewhere: RCSB PDB 6WX8 · PDBe 6WX8 · UniProt O00629 · UniProt P48431
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.