Research workbench
The 1.35 structure of a viral RNase L antagonist reveals basis for the 2'-5'-oligoadenylate binding and enzyme activity.
Analyse The 1.35 structure of a viral RNase L antagonist reveals basis for the… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4YE2
- Type
- protein
- Length
- 283 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 3.098
- Source
- Rotavirus A
- Molecule
- Capping enzyme protein
- UniProt
- B3F2X4
- Ligands
- A2P, SO4
- Pockets
- 5 · best druggability 0.53
Structure
x-ray diffraction · resolution 3.098 · 2 distinct chains · 23% helix, 39% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Capping enzyme protein | protein | 142 | 23% helix, 40% strand | B3F2X4 |
| B | Capping enzyme protein | protein | 141 | 23% helix, 37% strand | B3F2X4 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 239 | 0.53 | 0.76 | 33 | A2P |
| 2 | 109 | 0.39 | 0.75 | 16 | empty |
| 3 | 82 | 0.34 | 0.74 | 13 | empty |
| 4 | 62 | 0.30 | 0.75 | 23 | empty |
| 5 | 51 | 0.26 | 0.73 | 11 | empty |
Interfaces
1 interface between chains.
- A–B · 490 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 4YE2 · The 1.35 structure of a viral RNase L antagonist reveals basis for the… · 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 B3F2X4
- Elsewhere: RCSB PDB 4YE2 · PDBe 4YE2 · UniProt B3F2X4
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