Research workbench
Crystal structure of the major house dust mite allergen der P 1 in its pro form at 1.61 a resolution
Analyse Crystal structure of the major house dust mite allergen der P 1 in its pro form… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1XKG
- Type
- protein
- Length
- 298 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Major mite fecal allergen der P 1
- EC
- 3.4.22.-
- UniProt
- P08176
- Ligands
- YT3, SO4
- Pockets
- 2 · best druggability 0.45
Structure
x-ray diffraction · 1 distinct chain · 35% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Major mite fecal allergen der P 1 (EC 3.4.22.-) | protein | 298 | 35% helix, 19% strand | P08176 |
Ligands and binding sites
- YT3 · Yttrium (III) ion · metal · chains A
- SO4 · Sulfate ion · ion · 2 copies · chains A
- GOL · Glycerol · additive · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 128 | 0.45 | 0.77 | 20 | empty |
| 2 | 83 | 0.31 | 0.73 | 16 | empty |
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 1XKG · Crystal structure of the major house dust mite allergen Der p 1 in its pro form at 1.61 A… · the same entry in another collection · chain A against A, TM-score 1.00
- P08176 · AlphaFold monomer V2.0 prediction for peptidase 1 (P08176) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 P08176
- Elsewhere: RCSB PDB 1XKG · PDBe 1XKG · UniProt P08176
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.