Research workbench
Cryoem structure of a type VI secretion system
Analyse Cryoem structure of a type VI secretion system in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3J9O
- Type
- protein
- Length
- 3,366 residues
- Chains
- 12
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Intracellular growth locus protein a; Intracellular growth locus protein B
- UniProt
- A0Q7I5, A0Q7I4
- Pockets
- 20 · best druggability 0.61
Structure
electron microscopy · 2 distinct chains · 32% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, E, G, I, K | Intracellular growth locus protein a | protein | 134 | 19% helix, 10% strand | A0Q7I5 |
| B, D, F, H, J, L | Intracellular growth locus protein B | protein | 427 | 36% helix, 13% strand | A0Q7I4 |
Pockets
20 pockets found on a 1 Å grid, 13 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 270 | 0.61 | 0.80 | 32 | empty |
| 2 | 296 | 0.60 | 0.78 | 32 | empty |
| 3 | 279 | 0.60 | 0.79 | 31 | empty |
| 4 | 297 | 0.59 | 0.78 | 31 | empty |
| 5 | 275 | 0.59 | 0.79 | 33 | empty |
Interfaces
12 interfaces between chains.
- A–B · 3422 Ų buried · 35 hydrogen bonds · protein-protein
- I–J · 3420 Ų buried · 35 hydrogen bonds · protein-protein
- E–F · 3419 Ų buried · 36 hydrogen bonds · protein-protein
- K–L · 3418 Ų buried · 35 hydrogen bonds · protein-protein
- C–D · 3414 Ų buried · 35 hydrogen bonds · protein-protein
Compared structures
- 3J9O · CryoEM structure of a type VI secretion system · 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 A0Q7I5
- Every structure of UniProt A0Q7I4
- Elsewhere: RCSB PDB 3J9O · PDBe 3J9O · UniProt A0Q7I5 · UniProt A0Q7I4
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