MolNFT v1 · #57812 · protein
Structural insigths into dsrna binding and RNA silencing suppression by NS3 protein of rice hoja blanca tenuivirus
3AJF · Non-structural protein 3: “Structural insigths into dsrna binding and RNA silencing suppression by NS3 protein of rice hoja blanca…”. X-ray diffraction, 1 ligand (SO4), 3 pockets (best druggability 0.81). MolNFT v1 #57812 on…
- PDB
- 3AJF
- Type
- protein
- Length
- 363 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Non-structural protein 3
- UniProt
- Q67897
- Ligands
- SO4
- Pockets
- 3 · best druggability 0.81
Structure
x-ray diffraction · 3 distinct chains · 65% helix, 1% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Non-structural protein 3 | protein | 92 | 63% helix, 4% strand | Q67897 |
| C | Non-structural protein 3 | protein | 89 | 65% helix, 0% strand | Q67897 |
| D | Non-structural protein 3 | protein | 90 | 67% helix, 0% strand | Q67897 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 8 copies · chains A, C, B, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 907 | 0.81 | 0.83 | 81 | SO4 |
| 2 | 88 | 0.64 | 0.90 | 12 | empty |
| 3 | 62 | 0.28 | 0.73 | 15 | empty |
Interfaces
6 interfaces between chains.
- B–C · 1049 Ų buried · 9 hydrogen bonds · protein-protein
- A–D · 1037 Ų buried · 12 hydrogen bonds · protein-protein
- B–D · 525 Ų buried · 3 hydrogen bonds · protein-protein
- A–C · 489 Ų buried · 3 hydrogen bonds · protein-protein
- C–D · 69 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 12 modified, 4 disulfide (engineered, disulfide).
Compared structures
- 3AJF · Structural insigths into dsRNA binding and RNA silencing suppression by NS3 protein of… · the same entry in another collection · chain A against A, TM-score 1.00
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 Q67897
- Elsewhere: RCSB PDB 3AJF · PDBe 3AJF · UniProt Q67897
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