Research workbench
Crystal structure of bat influenza A/H17N10 polymerase with viral RNA promoter bound to a 19-mer serine 5 phosphorylated pol II ctd peptide with a truncated linker.
Analyse Crystal structure of bat influenza A/H17N10 polymerase with viral RNA promoter… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6FHI
- Type
- protein + RNA
- Length
- 2,236 residues
- Chains
- 6
- Method
- x-ray diffraction
- 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
- H6QM92, H6QM91, H6QM90
- Ligands
- ZN, PO4
- Pockets
- 20 · best druggability 0.87
Structure
x-ray diffraction · 6 distinct chains · 42% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Polymerase acidic protein | protein | 709 | 42% helix, 16% strand | H6QM92 |
| B | RNA-directed RNA polymerase catalytic subunit (EC 2.7.7.48) | protein | 750 | 46% helix, 17% strand | H6QM91 |
| C | Polymerase basic protein 2 | protein | 730 | 38% helix, 23% strand | H6QM90 |
| R | RNA (5'-R(*UP*AP*UP*AP*CP*CP*UP*CP*UP*GP*CP*UP*U)-3') | rna | 12 | — | — |
| V | RNA (5'- R(P*AP*GP*UP*AP*GP*UP*AP*AP*CP*AP*AP*GP*AP*GP*GP*G)-3') | rna | 16 | — | — |
| X | Tyr-ser-pro-thr-sep-pro-ser-tyr-ser-pro-ser-tyr-ser-pro- thr-sep-pro-ser-tyr | protein | 19 | 0% helix, 0% strand | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 1127 | 0.87 | 0.88 | 112 | PO4 |
| 2 | 928 | 0.84 | 0.86 | 109 | empty |
| 3 | 679 | 0.83 | 0.88 | 77 | PO4 |
| 4 | 742 | 0.77 | 0.82 | 49 | PO4 |
| 5 | 334 | 0.77 | 0.88 | 50 | PO4 |
Interfaces
10 interfaces between chains.
- A–B · 9156 Ų buried · 171 hydrogen bonds · protein-protein
- B–C · 7459 Ų buried · 100 hydrogen bonds · protein-protein
- A–C · 1820 Ų buried · 17 hydrogen bonds · protein-protein
- A–V · 1352 Ų buried · 22 hydrogen bonds · protein-nucleic
- A–X · 1044 Ų buried · 13 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 modified (phosphorylation).
Compared structures
- 6FHI · Crystal structure of bat influenza A/H17N10 polymerase with viral RNA promoter bound to a… · the same entry in another collection · chain X against X, 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 H6QM92
- Every structure of UniProt H6QM91
- Every structure of UniProt H6QM90
- Elsewhere: RCSB PDB 6FHI · PDBe 6FHI · UniProt H6QM92 · UniProt H6QM91 · UniProt H6QM90
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.