Research workbench
Crystal structure of an odorant-binding protein from the southern house mosquito complexed with an oviposition pheromone
Analyse Crystal structure of an odorant-binding protein from the southern house… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3OGN
- Type
- protein
- Length
- 248 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Odorant-binding protein
- UniProt
- Q8T6I2
- Ligands
- 3OG, MG
- Pockets
- 3 · best druggability 0.88
Structure
x-ray diffraction · 1 distinct chain · 59% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Odorant-binding protein | protein | 124 | 59% helix, 2% strand | Q8T6I2 |
Ligands and binding sites
- 3OG · (1S)-1-[(2R)-6-oxotetrahydro-2H-pyran-2-yl]undecyl acetate · ligand · 2 copies · chains A, B
- MG · Magnesium ion · metal · 4 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 613 | 0.88 | 0.92 | 65 | 3OG |
| 2 | 61 | 0.38 | 0.79 | 16 | empty |
| 3 | 69 | 0.38 | 0.78 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 708 Ų buried · 16 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide (disulfide).
Compared structures
- 3OGN · Crystal Structure of an Odorant-binding Protein from the Southern House Mosquito… · the same entry in another collection · chain A against A, TM-score 1.00
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 Q8T6I2
- Elsewhere: RCSB PDB 3OGN · PDBe 3OGN · UniProt Q8T6I2
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