Research workbench
Crystal structure of vicilin from solanum lycopersicum (tomato)
Analyse Crystal structure of vicilin from solanum lycopersicum (tomato) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6L4M
- Type
- protein
- Length
- 357 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Vicilin
- UniProt
- B0JEU3
- Ligands
- SAL
- Pockets
- 2 · best druggability 0.72
Structure
x-ray diffraction · 1 distinct chain · 17% helix, 40% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Vicilin | protein | 357 | 17% helix, 40% strand | B0JEU3 |
Ligands and binding sites
- SAL · 2-hydroxybenzoic acid · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 59 | 0.72 | 0.98 | 23 | empty |
| 2 | 52 | 0.30 | 0.75 | 14 | empty |
Compared structures
- 6L4M · Crystal structure of vicilin from Solanum lycopersicum (tomato) · 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 B0JEU3
- Elsewhere: RCSB PDB 6L4M · PDBe 6L4M · UniProt B0JEU3
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