Research workbench
Cryo-EM structure of mal de rio cuarto virus P9-1 viroplasm protein (dodecamer)
Analyse Cryo-EM structure of mal de rio cuarto virus P9-1 viroplasm protein (dodecamer) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7KVD
- Type
- protein
- Length
- 3,192 residues
- Chains
- 12
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- P9-1
- UniProt
- D9U542
- Pockets
- 20 · best druggability 0.85
Structure
electron microscopy · 1 distinct chain · 34% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I, J, K, L | P9-1 | protein | 266 | 34% helix, 16% strand | D9U542 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1106 | 0.85 | 0.86 | 170 | empty |
| 2 | 640 | 0.83 | 0.87 | 113 | empty |
| 3 | 1019 | 0.83 | 0.84 | 149 | empty |
| 4 | 1004 | 0.83 | 0.83 | 143 | empty |
| 5 | 721 | 0.82 | 0.86 | 109 | empty |
Interfaces
24 interfaces between chains.
- F–G · 1411 Ų buried · 10 hydrogen bonds · protein-protein
- B–C · 1409 Ų buried · 10 hydrogen bonds · protein-protein
- J–K · 1406 Ų buried · 10 hydrogen bonds · protein-protein
- H–I · 1403 Ų buried · 10 hydrogen bonds · protein-protein
- D–E · 1399 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 7KVD · Cryo-EM structure of Mal de Rio Cuarto virus P9-1 viroplasm protein (dodecamer) · 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 D9U542
- Elsewhere: RCSB PDB 7KVD · PDBe 7KVD · UniProt D9U542
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.