Research workbench
C-terminal domain of influenza a virus polymerase PB2 subunit in complex with human importin ALPHA5
Analyse C-terminal domain of influenza a virus polymerase PB2 subunit in complex with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2JDQ
- Type
- protein
- Length
- 978 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Importin alpha-1 subunit; Polymerase basic protein 2
- UniProt
- P52294, P31345
- Pockets
- 15 · best druggability 0.63
Structure
x-ray diffraction · 4 distinct chains · 67% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Importin alpha-1 subunit | protein | 424 | 75% helix, 0% strand | P52294 |
| B | Importin alpha-1 subunit | protein | 426 | 73% helix, 0% strand | P52294 |
| D | Polymerase basic protein 2 | protein | 63 | 16% helix, 33% strand | P31345 |
| E | Polymerase basic protein 2 | protein | 65 | 17% helix, 31% strand | P31345 |
Pockets
15 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 239 | 0.63 | 0.82 | 43 | empty |
| 2 | 402 | 0.63 | 0.78 | 41 | empty |
| 3 | 170 | 0.50 | 0.78 | 24 | empty |
| 4 | 218 | 0.48 | 0.74 | 31 | empty |
| 5 | 147 | 0.47 | 0.77 | 19 | empty |
Interfaces
3 interfaces between chains.
- B–D · 1802 Ų buried · 49 hydrogen bonds · protein-protein
- A–E · 1679 Ų buried · 47 hydrogen bonds · protein-protein
- A–B · 867 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 2JDQ · C-terminal domain of influenza A virus polymerase PB2 subunit in complex with human… · the same entry in another collection · chain A against A, TM-score 1.00
- P52294 · AlphaFold monomer V2.0 prediction for importin subunit alpha-5 (P52294) · a predicted model of the same protein · chain A against A, TM-score 0.93
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 P52294
- Every structure of UniProt P31345
- Elsewhere: RCSB PDB 2JDQ · PDBe 2JDQ · UniProt P52294 · UniProt P31345
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