Research workbench
Complex of influenza a NS1 effector domain with TRIM25 coiled coil
Analyse Complex of influenza a NS1 effector domain with TRIM25 coiled coil in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5NT1
- Type
- protein
- Length
- 878 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- E3 UBIQUITIN/ISG15 ligase TRIM25; Non-structural protein 1
- EC
- 6.3.2.-, 2.3.2.27
- UniProt
- Q14258, P03496
- Pockets
- 3 · best druggability 0.58
Structure
x-ray diffraction · 3 distinct chains · 47% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, E, I | E3 UBIQUITIN/ISG15 ligase TRIM25 (EC 6.3.2.-, 2.3.2.27) | protein | 173 | 80% helix, 0% strand | Q14258 |
| B, F | Non-structural protein 1 | protein | 120 | 23% helix, 43% strand | P03496 |
| J | Non-structural protein 1 | protein | 119 | 24% helix, 43% strand | P03496 |
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 365 | 0.58 | 0.76 | 55 | empty |
| 2 | 320 | 0.55 | 0.75 | 54 | empty |
| 3 | 194 | 0.44 | 0.73 | 29 | empty |
Interfaces
5 interfaces between chains.
- B–I · 673 Ų buried · 5 hydrogen bonds · protein-protein
- A–J · 612 Ų buried · 6 hydrogen bonds · protein-protein
- I–J · 172 Ų buried · 0 hydrogen bonds · protein-protein
- E–F · 117 Ų buried · 0 hydrogen bonds · protein-protein
- A–B · 117 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 5NT1 · Complex of influenza A NS1 effector domain with TRIM25 coiled coil · the same entry in another collection · chain E against E, 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 A against A, TM-score 0.90
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 Q14258
- Every structure of UniProt P03496
- Elsewhere: RCSB PDB 5NT1 · PDBe 5NT1 · UniProt Q14258 · UniProt P03496
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