Research workbench
Kcsa T75G mutant in the nonconductive state
Analyse Kcsa T75G mutant in the nonconductive state in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5EBM
- Type
- protein
- Length
- 531 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Antibody Fab fragment light chain; PH-gated potassium channel kcsa
- UniProt
- P0A334
- Ligands
- DGA, F09, K
- Pockets
- 6 · best druggability 0.69
Structure
x-ray diffraction · 3 distinct chains · 18% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Antibody Fab fragment light chain | protein | 218 | 4% helix, 51% strand | — |
| B | Antibody Fab fragment light chain | protein | 212 | 6% helix, 53% strand | — |
| C | PH-gated potassium channel kcsa | protein | 101 | 72% helix, 0% strand | P0A334 |
Ligands and binding sites
- DGA · Diacyl glycerol · ligand · chains C
- F09 · Nonan-1-ol · ligand · chains A, C
- K · Potassium ion · metal · 3 copies · chains C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 707 | 0.69 | 0.77 | 54 | empty |
| 2 | 75 | 0.50 | 0.85 | 16 | empty |
| 3 | 61 | 0.49 | 0.85 | 16 | empty |
| 4 | 133 | 0.47 | 0.78 | 29 | empty |
| 5 | 143 | 0.46 | 0.77 | 34 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1799 Ų buried · 15 hydrogen bonds · protein-protein
- A–C · 480 Ų buried · 10 hydrogen bonds · protein-protein
- B–C · 435 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 5EBM · KcsA T75G mutant in the nonconductive state · 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 5EBM · PDBe 5EBM · UniProt P0A334
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