Research workbench
Crystal structure of yellow lupin llpr-10.2B protein in complex with melatonin
Analyse Crystal structure of yellow lupin llpr-10.2B protein in complex with melatonin in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5MXB
- Type
- protein
- Length
- 155 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Class 10 plant pathogenesis-related protein
- UniProt
- Q9LLQ2
- Ligands
- ML1, NA, UNL
- Pockets
- 1 · best druggability 0.80
Structure
x-ray diffraction · 1 distinct chain · 31% helix, 46% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Class 10 plant pathogenesis-related protein | protein | 155 | 31% helix, 46% strand | Q9LLQ2 |
Ligands and binding sites
- ML1 · N-[2-(5-methoxy-1H-indol-3-yl)ethyl]acetamide · ligand · 2 copies · chains A
- NA · Sodium ion · metal · chains A
- UNL · Unknown ligand · ion · 19 copies · chains A
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 | 854 | 0.80 | 0.82 | 70 | UNL, ML1 |
Compared structures
- 5MXB · Crystal structure of yellow lupin LLPR-10.2B protein in complex with melatonin · the same entry in another collection · chain A against A, TM-score 1.00
- Q9LLQ2 · AlphaFold monomer V2.0 prediction for class 10 plant pathogenesis- related protein 2B… · a predicted model of the same protein · chain A against A, TM-score 0.95
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 Q9LLQ2
- Elsewhere: RCSB PDB 5MXB · PDBe 5MXB · UniProt Q9LLQ2
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