Research workbench
Complex of influenza a NS1 with TRIM25 coiled coil domain
Analyse Complex of influenza a NS1 with TRIM25 coiled coil domain in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5NT2
- Type
- protein
- Length
- 1,323 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Non-structural protein 1; E3 UBIQUITIN/ISG15 ligase TRIM25
- EC
- 6.3.2.-, 2.3.2.27
- UniProt
- P03496, Q14258
- Pockets
- 16 · best druggability 0.79
Structure
x-ray diffraction · 4 distinct chains · 47% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| F, C | Non-structural protein 1 | protein | 115 | 23% helix, 44% strand | P03496 |
| D | Non-structural protein 1 | protein | 200 | 39% helix, 25% strand | P03496 |
| E | Non-structural protein 1 | protein | 201 | 39% helix, 24% strand | P03496 |
| I, A, V, N | E3 UBIQUITIN/ISG15 ligase TRIM25 (EC 6.3.2.-, 2.3.2.27) | protein | 173 | 82% helix, 0% strand | Q14258 |
Pockets
16 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 908 | 0.79 | 0.82 | 77 | empty |
| 2 | 217 | 0.75 | 0.90 | 35 | empty |
| 3 | 321 | 0.74 | 0.86 | 47 | empty |
| 4 | 121 | 0.68 | 0.90 | 21 | empty |
| 5 | 250 | 0.64 | 0.82 | 39 | empty |
Interfaces
17 interfaces between chains.
- A–V · 5288 Ų buried · 45 hydrogen bonds · protein-protein
- I–N · 5213 Ų buried · 43 hydrogen bonds · protein-protein
- D–E · 1917 Ų buried · 33 hydrogen bonds · protein-protein
- E–V · 832 Ų buried · 10 hydrogen bonds · protein-protein
- D–N · 661 Ų buried · 9 hydrogen bonds · protein-protein
Compared structures
- 5NT2 · Complex of influenza A NS1 with TRIM25 coiled coil domain · the same entry in another collection · chain N against N, TM-score 1.00
- Q14258 · AlphaFold monomer V2.0 prediction for E3 UBIQUITIN/ISG15 ligase TRIM25 (Q14258) · a predicted model of the same protein · chain I against A, TM-score 0.91
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 P03496
- Every structure of UniProt Q14258
- Elsewhere: RCSB PDB 5NT2 · PDBe 5NT2 · UniProt P03496 · UniProt Q14258
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