Research workbench
Kcsa potassium channel mutant Y82C with nitroxide spin label
Analyse Kcsa potassium channel mutant Y82C with nitroxide spin label in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3STZ
- Type
- protein
- Length
- 533 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Antibody Fab fragment heavy chain; Antibody Fab fragment light chain; Voltage-gated…
- UniProt
- P0A334
- Ligands
- MTN, K
- Pockets
- 6 · best druggability 0.68
Structure
x-ray diffraction · 3 distinct chains · 18% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Antibody Fab fragment heavy chain | protein | 219 | 4% helix, 49% strand | — |
| B | Antibody Fab fragment light chain | protein | 212 | 6% helix, 53% strand | — |
| C | Voltage-gated potassium channel | protein | 102 | 74% helix, 0% strand | P0A334 |
Ligands and binding sites
- MTN · S-[(1-oxyl-2,2,5,5-tetramethyl-2,5-dihydro-1H-pyrrol-3-yl)methyl] methanesulfonothioate · ligand · chains B, C
- K · Potassium ion · metal · 5 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, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 759 | 0.68 | 0.76 | 61 | empty |
| 2 | 81 | 0.60 | 0.89 | 17 | empty |
| 3 | 81 | 0.55 | 0.86 | 17 | empty |
| 4 | 184 | 0.52 | 0.78 | 34 | empty |
| 5 | 50 | 0.46 | 0.86 | 20 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1845 Ų buried · 16 hydrogen bonds · protein-protein
- A–C · 497 Ų buried · 7 hydrogen bonds · protein-protein
- B–C · 430 Ų buried · 10 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide, 1 covalent (disulfide, covalent ligand).
Compared structures
- 3STZ · KcsA potassium channel mutant Y82C with nitroxide spin label · 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 3STZ · PDBe 3STZ · UniProt P0A334
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