Research workbench
Bat influenza a polymerase pre-initiation complex
Analyse Bat influenza a polymerase pre-initiation complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6T0N
- Type
- protein + RNA
- Length
- 1,731 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
- H6QM92, H6QM91, H6QM90
- Ligands
- MG
- Pockets
- 20 · best druggability 0.86
Structure
electron microscopy · 5 distinct chains · 44% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Polymerase acidic protein | protein | 704 | 42% helix, 18% strand | H6QM92 |
| B | RNA-directed RNA polymerase catalytic subunit (EC 2.7.7.48) | protein | 749 | 47% helix, 16% strand | H6QM91 |
| C | Polymerase basic protein 2 | protein | 250 | 42% helix, 17% strand | H6QM90 |
| V | 5' vrna | rna | 14 | — | — |
| R | 3' vrna | rna | 14 | — | — |
Ligands and binding sites
- MG · Magnesium ion · metal · 2 copies · chains B, A, V
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 15 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 882 | 0.86 | 0.88 | 104 | empty |
| 2 | 1174 | 0.82 | 0.84 | 92 | empty |
| 3 | 982 | 0.78 | 0.80 | 65 | empty |
| 4 | 828 | 0.77 | 0.81 | 73 | empty |
| 5 | 84 | 0.75 | 0.97 | 22 | empty |
Interfaces
9 interfaces between chains.
- A–B · 8997 Ų buried · 144 hydrogen bonds · protein-protein
- B–C · 6666 Ų buried · 70 hydrogen bonds · protein-protein
- A–V · 1340 Ų buried · 24 hydrogen bonds · protein-nucleic
- A–C · 1282 Ų buried · 8 hydrogen bonds · protein-protein
- B–R · 1132 Ų buried · 29 hydrogen bonds · protein-nucleic
Compared structures
- 6T0N · Bat Influenza A polymerase pre-initiation complex · 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 H6QM92
- Every structure of UniProt H6QM91
- Every structure of UniProt H6QM90
- Elsewhere: RCSB PDB 6T0N · PDBe 6T0N · UniProt H6QM92 · UniProt H6QM91 · UniProt H6QM90
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