Research workbench
Cryo-EM structure of the nonameric ssav cytosolic domain with C9 symmetry
Analyse Cryo-EM structure of the nonameric ssav cytosolic domain with C9 symmetry in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7FEC
- Type
- protein
- Length
- 3,024 residues
- Chains
- 9
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Secretion system apparatus protein ssav
- UniProt
- P74856
- Pockets
- 20 · best druggability 0.80
Structure
electron microscopy · 1 distinct chain · 41% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| E, A, B, C, D, F, G, H, I | Secretion system apparatus protein ssav | protein | 336 | 41% helix, 18% strand | P74856 |
Pockets
20 pockets found on a 1 Å grid, 18 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 979 | 0.80 | 0.82 | 86 | empty |
| 2 | 1165 | 0.79 | 0.80 | 90 | empty |
| 3 | 1196 | 0.78 | 0.80 | 96 | empty |
| 4 | 1180 | 0.78 | 0.80 | 95 | empty |
| 5 | 1132 | 0.78 | 0.80 | 96 | empty |
Interfaces
9 interfaces between chains.
- G–H · 1331 Ų buried · 10 hydrogen bonds · protein-protein
- A–B · 1330 Ų buried · 10 hydrogen bonds · protein-protein
- C–D · 1329 Ų buried · 12 hydrogen bonds · protein-protein
- F–G · 1328 Ų buried · 10 hydrogen bonds · protein-protein
- H–I · 1326 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
- 7FEC · Cryo-EM structure of the nonameric SsaV cytosolic domain with C9 symmetry · the same entry in another collection · chain I against I, TM-score 1.00
- P74856 · AlphaFold monomer V2.0 prediction for secretion system apparatus protein ssav (P74856) · a predicted model of the same protein · chain E against A, TM-score 0.92
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 P74856
- Elsewhere: RCSB PDB 7FEC · PDBe 7FEC · UniProt P74856
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.