Research workbench
Crystal structure of semet phased viral otu domain protease from qalyub virus
Analyse Crystal structure of semet phased viral otu domain protease from qalyub virus in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6DWX
- Type
- protein
- Length
- 458 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA-dependent RNA polymerase
- UniProt
- A0A191KWB3
- Pockets
- 9 · best druggability 0.66
Structure
x-ray diffraction · 2 distinct chains · 42% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | RNA-dependent RNA polymerase | protein | 151 | 43% helix, 29% strand | A0A191KWB3 |
| B | RNA-dependent RNA polymerase | protein | 156 | 41% helix, 28% strand | A0A191KWB3 |
Pockets
9 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 153 | 0.66 | 0.87 | 34 | empty |
| 2 | 58 | 0.33 | 0.76 | 13 | empty |
| 3 | 62 | 0.33 | 0.76 | 15 | empty |
| 4 | 58 | 0.33 | 0.77 | 14 | empty |
| 5 | 55 | 0.32 | 0.76 | 11 | empty |
Interfaces
3 interfaces between chains.
- A–C · 423 Ų buried · 2 hydrogen bonds · protein-protein
- A–B · 416 Ų buried · 2 hydrogen bonds · protein-protein
- B–C · 396 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 modified (engineered).
Compared structures
- 6DWX · Crystal structure of SeMet phased viral OTU domain protease from Qalyub virus · 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 A0A191KWB3
- Elsewhere: RCSB PDB 6DWX · PDBe 6DWX · UniProt A0A191KWB3
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