Research workbench
Structure of the la crosse bunyavirus polymerase in complex with the 3' and 5' viral RNA
Analyse Structure of the la crosse bunyavirus polymerase in complex with the 3' and 5'… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5AMQ
- Type
- protein + RNA
- Length
- 1,700 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA polymerase L; RNA
- UniProt
- A5HC98
- Pockets
- 20 · best druggability 0.78
Structure
x-ray diffraction · 4 distinct chains · 52% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RNA polymerase L | protein | 1666 | 52% helix, 11% strand | A5HC98 |
| B | RNA | rna | 16 | — | — |
| C | RNA | rna | 10 | — | — |
| c | RNA | rna | 8 | — | — |
Pockets
20 pockets found on a 1 Å grid, 14 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 354 | 0.78 | 0.88 | 32 | empty |
| 2 | 1164 | 0.76 | 0.79 | 73 | empty |
| 3 | 644 | 0.75 | 0.81 | 73 | empty |
| 4 | 470 | 0.75 | 0.83 | 41 | empty |
| 5 | 349 | 0.67 | 0.81 | 39 | empty |
Interfaces
4 interfaces between chains.
- A–B · 1738 Ų buried · 37 hydrogen bonds · protein-nucleic
- A–C · 1450 Ų buried · 47 hydrogen bonds · protein-nucleic
- B–c · 375 Ų buried · 30 hydrogen bonds · nucleic-nucleic
- A–c · 254 Ų buried · 5 hydrogen bonds · protein-nucleic
Compared structures
- 5AMQ · Structure of the La Crosse Bunyavirus polymerase in complex with the 3' and 5' viral RNA · 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 A5HC98
- Elsewhere: RCSB PDB 5AMQ · PDBe 5AMQ · UniProt A5HC98
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