Research workbench
Structure of an acid sensing ion channel in a resting state at high pH
Analyse Structure of an acid sensing ion channel in a resting state at high pH in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6AVE
- Type
- protein
- Length
- 1,272 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Acid-sensing ion channel 1
- UniProt
- Q1XA76
- Ligands
- NAG
- Pockets
- 14 · best druggability 0.81
Structure
electron microscopy · 1 distinct chain · 34% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Acid-sensing ion channel 1 | protein | 424 | 34% helix, 22% strand | Q1XA76 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 6 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
14 pockets found on a 1 Å grid, 14 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 499 | 0.81 | 0.88 | 72 | empty |
| 2 | 391 | 0.80 | 0.89 | 48 | empty |
| 3 | 323 | 0.79 | 0.90 | 48 | empty |
| 4 | 266 | 0.77 | 0.90 | 43 | empty |
| 5 | 353 | 0.76 | 0.86 | 50 | empty |
Interfaces
3 interfaces between chains.
- A–C · 2360 Ų buried · 27 hydrogen bonds · protein-protein
- A–B · 2355 Ų buried · 26 hydrogen bonds · protein-protein
- B–C · 2351 Ų buried · 26 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 21 disulfide, 6 glycan (disulfide, N-glycosylation).
Compared structures
- 6AVE · Structure of an acid sensing ion channel in a resting state 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 B against A, TM-score 0.96
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
- Elsewhere: RCSB PDB 6AVE · PDBe 6AVE · UniProt Q1XA76
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