Research workbench
Lig V 1 structure and the inflammatory response to the ole E 1 protein family
Analyse Lig V 1 structure and the inflammatory response to the ole E 1 protein family in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6YOA
- Type
- protein
- Length
- 275 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Major pollen allergen lig V 1
- UniProt
- O82015
- Ligands
- NI
- Pockets
- 1 · best druggability 0.83
Structure
x-ray diffraction · 2 distinct chains · 9% helix, 40% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Major pollen allergen lig V 1 | protein | 138 | 7% helix, 44% strand | O82015 |
| B | Major pollen allergen lig V 1 | protein | 137 | 12% helix, 36% strand | O82015 |
Ligands and binding sites
- NI · Nickel (II) ion · metal · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 508 | 0.83 | 0.89 | 50 | empty |
Interfaces
1 interface between chains.
- A–B · 1679 Ų buried · 24 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide (disulfide).
Compared structures
- 6YOA · Lig v 1 structure and the inflammatory response to the Ole e 1 protein family · the same entry in another collection · chain A against A, TM-score 1.00
- O82015 · AlphaFold monomer V2.0 prediction for major pollen allergen lig V 1 (O82015) · a predicted model of the same protein · chain A against A, TM-score 0.98
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 O82015
- Elsewhere: RCSB PDB 6YOA · PDBe 6YOA · UniProt O82015
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