Research workbench
Crystal structure of acid-sensing ion channel in complex with psalmotoxin 1 at high pH
Analyse Crystal structure of acid-sensing ion channel in complex with psalmotoxin 1 at… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4FZ1
- Type
- protein
- Length
- 441 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Acid-sensing ion channel 1; Pi-theraphotoxin-PC1A
- UniProt
- Q1XA76, P60514
- Ligands
- NAG
- Pockets
- 5 · best druggability 0.71
Structure
x-ray diffraction · 2 distinct chains · 30% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Acid-sensing ion channel 1 | protein | 406 | 33% helix, 26% strand | Q1XA76 |
| D | Pi-theraphotoxin-PC1A | protein | 35 | 0% helix, 31% strand | P60514 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 2 copies · chains A
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 | 519 | 0.71 | 0.80 | 71 | empty |
| 2 | 157 | 0.66 | 0.86 | 27 | empty |
| 3 | 223 | 0.50 | 0.76 | 33 | empty |
| 4 | 110 | 0.36 | 0.74 | 28 | empty |
| 5 | 54 | 0.35 | 0.79 | 14 | empty |
Interfaces
1 interface between chains.
- A–D · 614 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 10 disulfide, 2 glycan (disulfide, N-glycosylation).
Compared structures
- 4FZ1 · Crystal structure of acid-sensing ion channel in complex with psalmotoxin 1 at high pH · the same entry in another collection · chain A against A, TM-score 1.00
- Q1XA76 · AlphaFold monomer V2.0 prediction for acid-sensing ion channel 1 (Q1XA76) · a predicted model of the same protein · chain A against A, TM-score 0.93
- P60514 · AlphaFold monomer V2.0 prediction for psalmotoxin-1 (P60514) · a predicted model of the same protein · chain D against A, TM-score 0.88
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 Q1XA76
- Every structure of UniProt P60514
- Elsewhere: RCSB PDB 4FZ1 · PDBe 4FZ1 · UniProt Q1XA76 · UniProt P60514
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