Research workbench
Kcsa in vitro
Analyse Kcsa in vitro in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5J9P
- Type
- protein
- Length
- 527 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fab; PH-gated potassium channel kcsa
- UniProt
- P0A334
- Ligands
- K
- Pockets
- 5 · best druggability 0.69
Structure
x-ray diffraction · 3 distinct chains · 17% helix, 40% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Fab | protein | 219 | 4% helix, 48% strand | — |
| B | Fab | protein | 212 | 7% helix, 49% strand | — |
| C | PH-gated potassium channel kcsa | protein | 96 | 70% helix, 0% strand | P0A334 |
Ligands and binding sites
- K · Potassium ion · metal · 6 copies · chains C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 695 | 0.69 | 0.77 | 57 | empty |
| 2 | 60 | 0.53 | 0.87 | 18 | empty |
| 3 | 73 | 0.52 | 0.85 | 16 | empty |
| 4 | 146 | 0.48 | 0.78 | 26 | empty |
| 5 | 90 | 0.34 | 0.74 | 21 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1832 Ų buried · 19 hydrogen bonds · protein-protein
- A–C · 464 Ų buried · 8 hydrogen bonds · protein-protein
- B–C · 437 Ų buried · 10 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 5J9P · KcsA in vitro · 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 P0A334
- Elsewhere: RCSB PDB 5J9P · PDBe 5J9P · UniProt P0A334
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