Research workbench
Structure of OBP3 from the vetch aphid megoura viciae
Analyse Structure of OBP3 from the vetch aphid megoura viciae in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4Z39
- Type
- protein
- Length
- 242 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Odorant-binding protein
- UniProt
- B6E9V6
- Ligands
- SO4
- Pockets
- 3 · best druggability 0.50
Structure
x-ray diffraction · 1 distinct chain · 64% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Odorant-binding protein | protein | 121 | 64% helix, 2% strand | B6E9V6 |
Ligands and binding sites
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 | 93 | 0.50 | 0.83 | 25 | GOL, SO4 |
| 2 | 75 | 0.37 | 0.77 | 18 | empty |
| 3 | 88 | 0.35 | 0.75 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 1205 Ų buried · 24 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide (disulfide).
Compared structures
- 4Z39 · Structure of OBP3 from the vetch aphid Megoura viciae · 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 B6E9V6
- Elsewhere: RCSB PDB 4Z39 · PDBe 4Z39 · UniProt B6E9V6
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