Research workbench
The structure of tolb, an essential component of the tol- dependent translocation system and its interactions with the translocation domain of colicin E9
Analyse The structure of tolb, an essential component of the tol- dependent… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1C5K
- Type
- protein
- Length
- 397 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein (tolb protein)
- UniProt
- P0A855
- Ligands
- YB
- Pockets
- 3 · best druggability 0.77
Structure
x-ray diffraction · 1 distinct chain · 10% helix, 45% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein (tolb protein) | protein | 397 | 10% helix, 45% strand | P0A855 |
Ligands and binding sites
- YB · Ytterbium (III) ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 481 | 0.77 | 0.85 | 48 | YB |
| 2 | 67 | 0.39 | 0.79 | 15 | empty |
| 3 | 72 | 0.36 | 0.77 | 17 | empty |
Compared structures
- 1C5K · The structure of tolb, an essential component of the tol-dependent translocation system… · the same entry in another collection · chain A against A, TM-score 1.00
- P0A855 · AlphaFold monomer V2.0 prediction for tol-pal system protein tolb (P0A855) · a predicted model of the same protein · chain A against A, TM-score 0.96
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 P0A855
- Elsewhere: RCSB PDB 1C5K · PDBe 1C5K · UniProt P0A855
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.