Research workbench
Transportin 3 in complex with phosphorylated ASF/SF2
Analyse Transportin 3 in complex with phosphorylated ASF/SF2 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4C0O
- Type
- protein
- Length
- 1,990 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transportin-3; SERINE/ARGININE-rich splicing factor 1
- UniProt
- Q9Y5L0, Q07955
- Ligands
- K
- Pockets
- 20 · best druggability 0.73
Structure
x-ray diffraction · 4 distinct chains · 70% helix, 3% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Transportin-3 | protein | 901 | 75% helix, 0% strand | Q9Y5L0 |
| B | Transportin-3 | protein | 898 | 76% helix, 0% strand | Q9Y5L0 |
| C | SERINE/ARGININE-rich splicing factor 1 | protein | 96 | 20% helix, 27% strand | Q07955 |
| D | SERINE/ARGININE-rich splicing factor 1 | protein | 95 | 20% helix, 27% strand | Q07955 |
Ligands and binding sites
- K · Potassium ion · metal · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 14 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 454 | 0.73 | 0.83 | 56 | empty |
| 2 | 415 | 0.71 | 0.82 | 39 | empty |
| 3 | 700 | 0.71 | 0.78 | 80 | K |
| 4 | 396 | 0.69 | 0.81 | 40 | empty |
| 5 | 387 | 0.68 | 0.81 | 39 | empty |
Interfaces
5 interfaces between chains.
- A–C · 2271 Ų buried · 51 hydrogen bonds · protein-protein
- B–D · 2143 Ų buried · 42 hydrogen bonds · protein-protein
- A–B · 1294 Ų buried · 19 hydrogen bonds · protein-protein
- A–D · 580 Ų buried · 8 hydrogen bonds · protein-protein
- B–C · 573 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 modified (phosphorylation).
Compared structures
- 4C0O · Transportin 3 in complex with phosphorylated ASF/SF2 · the same entry in another collection · chain A against A, TM-score 1.00
- Q9Y5L0 · AlphaFold monomer V2.0 prediction for transportin-3 (Q9Y5L0) · a predicted model of the same protein · chain B against A, TM-score 0.89
- Q07955 · AlphaFold monomer V2.0 prediction for SERINE/ARGININE-rich splicing factor 1 (Q07955) · a predicted model of the same protein · chain D against A, TM-score 0.81
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 Q9Y5L0
- Every structure of UniProt Q07955
- Elsewhere: RCSB PDB 4C0O · PDBe 4C0O · UniProt Q9Y5L0 · UniProt Q07955
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