Research workbench
A mechanism for the activation of the influenza virus transcriptase
Analyse A mechanism for the activation of the influenza virus transcriptase in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6F5O
- Type
- protein + RNA
- Length
- 2,207 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Polymerase acidic protein; RNA-directed RNA polymerase catalytic subunit; Polymerase…
- EC
- 2.7.7.48
- UniProt
- Q5V8Z9, Q5V8Y6, Q5V8X3
- Pockets
- 20 · best druggability 0.88
Structure
electron microscopy · 5 distinct chains · 43% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Polymerase acidic protein | protein | 716 | 45% helix, 16% strand | Q5V8Z9 |
| B | RNA-directed RNA polymerase catalytic subunit (EC 2.7.7.48) | protein | 733 | 48% helix, 16% strand | Q5V8Y6 |
| C | Polymerase basic protein 2 | protein | 730 | 37% helix, 22% strand | Q5V8X3 |
| R | 3' promoter vrna | rna | 14 | — | — |
| V | 5' promoter vrna | rna | 14 | — | — |
Pockets
20 pockets found on a 1 Å grid, 19 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1083 | 0.88 | 0.90 | 133 | empty |
| 2 | 1092 | 0.81 | 0.83 | 83 | empty |
| 3 | 990 | 0.79 | 0.80 | 73 | empty |
| 4 | 1054 | 0.77 | 0.79 | 94 | empty |
| 5 | 356 | 0.76 | 0.87 | 50 | empty |
Interfaces
9 interfaces between chains.
- A–B · 8971 Ų buried · 127 hydrogen bonds · protein-protein
- B–C · 6794 Ų buried · 77 hydrogen bonds · protein-protein
- A–C · 2145 Ų buried · 24 hydrogen bonds · protein-protein
- A–V · 1269 Ų buried · 25 hydrogen bonds · protein-nucleic
- B–V · 577 Ų buried · 6 hydrogen bonds · protein-nucleic
Compared structures
- 6F5O · A mechanism for the activation of the influenza virus transcriptase · 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 Q5V8Z9
- Every structure of UniProt Q5V8Y6
- Every structure of UniProt Q5V8X3
- Elsewhere: RCSB PDB 6F5O · PDBe 6F5O · UniProt Q5V8Z9 · UniProt Q5V8Y6 · UniProt Q5V8X3
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