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Structural insight into probable lipid transfer mechanism of non-specific lipid transfer protein via intermediate structures in Solanum melongena
Analyse Structural insight into probable lipid transfer mechanism of non-specific lipid… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6IWM
- Type
- protein
- Length
- 182 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 1.98
- Source
- Solanum melongena
- Molecule
- Non-specific lipid-transfer protein
- UniProt
- A0A247D6Y2
- Ligands
- SO4
- Pockets
- 1 · best druggability 0.69
Structure
x-ray diffraction · resolution 1.98 · 2 distinct chains · 67% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Non-specific lipid-transfer protein | protein | 92 | 66% helix, 0% strand | A0A247D6Y2 |
| B | Non-specific lipid-transfer protein | protein | 90 | 68% helix, 0% strand | A0A247D6Y2 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 2 copies · chains A, B
- GOL · Glycerol · additive · 3 copies · chains A, B
- TRS · 2-amino-2-hydroxymethyl-propane-1,3-diol · additive · 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 | 54 | 0.69 | 0.97 | 21 | empty |
Interfaces
1 interface between chains.
- A–B · 741 Ų buried · 10 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 6IWM · Structural insight into probable lipid transfer mechanism of non- specific lipid transfer… · 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 A0A247D6Y2
- Elsewhere: RCSB PDB 6IWM · PDBe 6IWM · UniProt A0A247D6Y2
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