Research workbench
The RNA-dependent RNA polymerase domain of dengue 2 NS5
Analyse The RNA-dependent RNA polymerase domain of dengue 2 NS5 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6IZY
- Type
- protein
- Length
- 586 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Genome polyprotein
- UniProt
- C6L435
- Ligands
- CO, ZN
- Pockets
- 7 · best druggability 0.54
Structure
x-ray diffraction · 1 distinct chain · 48% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Genome polyprotein | protein | 586 | 48% helix, 11% strand | C6L435 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 187 | 0.54 | 0.79 | 25 | empty |
| 2 | 181 | 0.53 | 0.78 | 18 | empty |
| 3 | 242 | 0.51 | 0.75 | 26 | empty |
| 4 | 136 | 0.50 | 0.79 | 25 | CO |
| 5 | 80 | 0.40 | 0.78 | 21 | empty |
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 6IZY · The RNA-dependent RNA polymerase domain of dengue 2 NS5 · 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 C6L435
- Elsewhere: RCSB PDB 6IZY · PDBe 6IZY · UniProt C6L435
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