MolNFT v1 · #178389 · protein
Cryo-EM structure of the nonameric ssav cytosolic domain with D9 symmetry
7FED · Secretion system apparatus protein ssav: “Cryo-EM structure of the nonameric ssav cytosolic domain with D9 symmetry”. Electron microscopy, 20 pockets (best druggability 0.79). MolNFT v1 #178389 on GenesisL1: 3D structure, binding…
- PDB
- 7FED
- Type
- protein
- Length
- 6,048 residues
- Chains
- 18
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Secretion system apparatus protein ssav
- UniProt
- P74856
- Pockets
- 20 · best druggability 0.79
Structure
electron microscopy · 1 distinct chain · 42% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| E, A, B, C, D, F, G, H, I, J, K, L, M, N, O, P, Q, R | Secretion system apparatus protein ssav | protein | 336 | 42% helix, 18% strand | P74856 |
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 | 1146 | 0.79 | 0.80 | 94 | empty |
| 2 | 1062 | 0.79 | 0.80 | 88 | empty |
| 3 | 1042 | 0.79 | 0.80 | 93 | empty |
| 4 | 1175 | 0.79 | 0.80 | 99 | empty |
| 5 | 1131 | 0.79 | 0.80 | 93 | empty |
Interfaces
36 interfaces between chains.
- M–N · 1163 Ų buried · 8 hydrogen bonds · protein-protein
- K–L · 1162 Ų buried · 7 hydrogen bonds · protein-protein
- Q–R · 1162 Ų buried · 7 hydrogen bonds · protein-protein
- C–D · 1162 Ų buried · 7 hydrogen bonds · protein-protein
- E–I · 1162 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 7FED · Cryo-EM structure of the nonameric SsaV cytosolic domain with D9 symmetry · the same entry in another collection · chain N against N, 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 P74856
- Elsewhere: RCSB PDB 7FED · PDBe 7FED · UniProt P74856
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