MolNFT v1 · #38310 · protein
Drosophila obp lush bound to attractant pheromone 11-cis- vaccenyl acetate
2GTE · General odorant-binding protein lush: “Drosophila obp lush bound to attractant pheromone 11-cis- vaccenyl acetate”. X-ray diffraction, 2 ligands (VA, PO4), 4 pockets (best druggability 0.84). MolNFT v1 #38310 on GenesisL1: 3D…
- PDB
- 2GTE
- Type
- protein
- Length
- 248 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- General odorant-binding protein lush
- UniProt
- O02372
- Ligands
- VA, PO4
- Pockets
- 4 · best druggability 0.84
Structure
x-ray diffraction · 1 distinct chain · 67% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | General odorant-binding protein lush | protein | 124 | 67% helix, 2% strand | O02372 |
Ligands and binding sites
- VA · (Z)-octadec-11-enyl acetate · ligand · 2 copies · chains A, B
- PO4 · Phosphate ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 248 | 0.84 | 0.95 | 34 | VA |
| 2 | 228 | 0.83 | 0.95 | 32 | VA |
| 3 | 131 | 0.45 | 0.77 | 22 | empty |
| 4 | 98 | 0.36 | 0.75 | 20 | empty |
Interfaces
1 interface between chains.
- A–B · 580 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide (disulfide).
Compared structures
- 2GTE · Drosophila OBP LUSH bound to attractant pheromone 11-cis-vaccenyl acetate · the same entry in another collection · chain A against A, TM-score 1.00
- O02372 · AlphaFold monomer V2.0 prediction for general odorant-binding protein lush (O02372) · 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 O02372
- Elsewhere: RCSB PDB 2GTE · PDBe 2GTE · UniProt O02372
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