Research workbench
Crystal structure of non-specific lipid transfer protein reveals non- canonical lipid binding: possible relevance in modulating allergenicity
Analyse Crystal structure of non-specific lipid transfer protein reveals non- canonical… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5TVI
- Type
- protein
- Length
- 182 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Non specific lipid transfer protein
- Ligands
- MYR, O8N
- Pockets
- 1 · best druggability 0.57
Structure
x-ray diffraction · 2 distinct chains · 65% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| V | Non specific lipid transfer protein | protein | 90 | 66% helix, 0% strand | — |
| W | Non specific lipid transfer protein | protein | 92 | 65% helix, 0% strand | — |
Ligands and binding sites
- MYR · Myristic acid · ligand · chains V
- O8N · octacosan-1-ol · ligand · chains W
- GOL · Glycerol · additive · chains V
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 | 50 | 0.57 | 0.90 | 17 | empty |
Interfaces
1 interface between chains.
- V–W · 740 Ų buried · 14 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 5TVI · Crystal structure of non-specific lipid transfer protein reveals non-canonical lipid… · the same entry in another collection · chain V against V, 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
- Elsewhere: RCSB PDB 5TVI · PDBe 5TVI
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