Research workbench
1918 influenza virus polymerase heterotirmer in complex with vrna promoters and NB8201
Analyse 1918 influenza virus polymerase heterotirmer in complex with vrna promoters and… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7NK1
- Type
- protein + RNA
- Length
- 1,814 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Polymerase acidic protein; RNA-directed RNA polymerase catalytic subunit; Polymerase…
- EC
- 3.1.-.-, 2.7.7.48
- UniProt
- Q3HM39, Q3HM40, Q3HM41
- Pockets
- 20 · best druggability 0.81
Structure
electron microscopy · 6 distinct chains · 42% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Polymerase acidic protein (EC 3.1.-.-) | protein | 716 | 42% helix, 16% strand | Q3HM39 |
| B | RNA-directed RNA polymerase catalytic subunit (EC 2.7.7.48) | protein | 735 | 47% helix, 15% strand | Q3HM40 |
| C | Polymerase basic protein 2,IMMUNOGLOBULIN G-binding protein a | protein | 249 | 43% helix, 17% strand | Q3HM41 |
| E | RNA (5'-R(P*GP*GP*CP*CP*UP*GP*CP*U)-3') | rna | 8 | — | — |
| D | RNA (5'-R(P*AP*GP*UP*AP*GP*AP*AP*AP*CP*AP*AP*GP*GP*CP*C)- 3') | rna | 15 | — | — |
| F | NANOBODY8201 | protein | 91 | 7% helix, 48% strand | — |
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 | 515 | 0.81 | 0.88 | 63 | empty |
| 2 | 519 | 0.80 | 0.87 | 55 | empty |
| 3 | 490 | 0.79 | 0.86 | 51 | empty |
| 4 | 898 | 0.78 | 0.81 | 98 | empty |
| 5 | 61 | 0.74 | 0.99 | 20 | empty |
Interfaces
10 interfaces between chains.
- A–B · 8959 Ų buried · 106 hydrogen bonds · protein-protein
- B–C · 6776 Ų buried · 53 hydrogen bonds · protein-protein
- A–D · 1394 Ų buried · 20 hydrogen bonds · protein-nucleic
- A–C · 1308 Ų buried · 10 hydrogen bonds · protein-protein
- B–D · 625 Ų buried · 6 hydrogen bonds · protein-nucleic
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 7NK1 · 1918 Influenza virus polymerase heterotirmer in complex with vRNA promoters and Nb8201 · 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 Q3HM39
- Every structure of UniProt Q3HM40
- Every structure of UniProt Q3HM41
- Elsewhere: RCSB PDB 7NK1 · PDBe 7NK1 · UniProt Q3HM39 · UniProt Q3HM40 · UniProt Q3HM41
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