Research workbench
Crystal structure of the potassium transporter trkh from vibrio parahaemolyticus
Analyse Crystal structure of the potassium transporter trkh from vibrio parahaemolyticus in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3PJZ
- Type
- protein
- Length
- 936 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Potassium uptake protein trkh
- UniProt
- Q87TN7
- Ligands
- K
- Pockets
- 9 · best druggability 0.82
Structure
x-ray diffraction · 1 distinct chain · 59% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Potassium uptake protein trkh | protein | 468 | 59% helix, 0% strand | Q87TN7 |
Ligands and binding sites
- K · Potassium ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1001 | 0.82 | 0.82 | 85 | empty |
| 2 | 715 | 0.73 | 0.79 | 48 | empty |
| 3 | 749 | 0.73 | 0.78 | 49 | empty |
| 4 | 331 | 0.72 | 0.84 | 59 | empty |
| 5 | 372 | 0.72 | 0.83 | 57 | empty |
Interfaces
1 interface between chains.
- A–B · 2188 Ų buried · 14 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 3PJZ · Crystal Structure of the Potassium Transporter TrkH from Vibrio parahaemolyticus · the same entry in another collection · chain A against A, TM-score 1.00
- Q87TN7 · AlphaFold monomer V2.0 prediction for trk system potassium uptake protein trkh (Q87TN7) · a predicted model of the same protein · chain A against A, TM-score 0.97
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 Q87TN7
- Elsewhere: RCSB PDB 3PJZ · PDBe 3PJZ · UniProt Q87TN7
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