Research workbench
Influenza a virus (A/NT/60/1968) polymerase hetermotrimer in complex with 3'5' crna promoter and NB8205
Analyse Influenza a virus (A/NT/60/1968) polymerase hetermotrimer in complex with 3'5'… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6QX3
- Type
- protein + RNA
- Length
- 1,351 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA (5'-R(P*AP*GP*CP*AP*AP*AP*AP*GP*CP*A)-3'); RNA (5'-R(P*UP*UP*CP*U)-3'); NB8205…
- EC
- 2.7.7.48, 3.1.-.-
- UniProt
- Q910D6, P03434, P03429
- Pockets
- 20 · best druggability 0.81
Structure
electron microscopy · 6 distinct chains · 34% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| D | RNA (5'-R(P*AP*GP*CP*AP*AP*AP*AP*GP*CP*A)-3') | rna | 10 | — | — |
| G | RNA (5'-R(P*UP*UP*CP*U)-3') | rna | 4 | — | — |
| O | NB8205 | protein | 121 | 7% helix, 36% strand | — |
| B | RNA-directed RNA polymerase catalytic subunit (EC 2.7.7.48) | protein | 615 | 38% helix, 10% strand | Q910D6 |
| A | Polymerase acidic protein (EC 3.1.-.-) | protein | 515 | 33% helix, 12% strand | P03434 |
| C | Polymerase basic protein 2 | protein | 86 | 43% helix, 10% strand | P03429 |
Pockets
20 pockets found on a 1 Å grid, 13 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1068 | 0.81 | 0.83 | 75 | empty |
| 2 | 131 | 0.78 | 0.97 | 24 | empty |
| 3 | 1144 | 0.76 | 0.78 | 98 | empty |
| 4 | 86 | 0.74 | 0.96 | 23 | empty |
| 5 | 56 | 0.72 | 0.98 | 16 | empty |
Interfaces
10 interfaces between chains.
- B–A · 8101 Ų buried · 65 hydrogen bonds · protein-protein
- B–C · 2247 Ų buried · 21 hydrogen bonds · protein-protein
- D–A · 1039 Ų buried · 7 hydrogen bonds · protein-nucleic
- O–A · 692 Ų buried · 16 hydrogen bonds · protein-protein
- G–A · 617 Ų buried · 11 hydrogen bonds · protein-nucleic
Compared structures
- 6QX3 · Influenza A virus (A/NT/60/1968) polymerase Hetermotrimer in complex with 3'5' cRNA… · the same entry in another collection · chain D against D, 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 Q910D6
- Every structure of UniProt P03434
- Every structure of UniProt P03429
- Elsewhere: RCSB PDB 6QX3 · PDBe 6QX3 · UniProt Q910D6 · UniProt P03434 · UniProt P03429
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