Research workbench
Crystal structure of the galectin-8 N-terminal carbohydrate recognition domain in complex with iodide
Analyse Crystal structure of the galectin-8 N-terminal carbohydrate recognition domain… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3APB
- Type
- protein
- Length
- 304 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Galectin-8
- UniProt
- O00214
- Ligands
- IOD
- Pockets
- 3 · best druggability 0.76
Structure
x-ray diffraction · 1 distinct chain · 2% helix, 53% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Galectin-8 | protein | 152 | 2% helix, 53% strand | O00214 |
Ligands and binding sites
- IOD · Iodide ion · ion · 29 copies · chains A, B
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 | 617 | 0.76 | 0.82 | 63 | IOD |
| 2 | 106 | 0.45 | 0.79 | 22 | IOD |
| 3 | 78 | 0.35 | 0.76 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 871 Ų buried · 19 hydrogen bonds · protein-protein
Compared structures
- 3APB · Crystal structure of the galectin-8 N-terminal carbohydrate recognition domain in complex… · the same entry in another collection · chain A against A, TM-score 1.00
- O00214 · AlphaFold monomer V2.0 prediction for galectin-8 (O00214) · a predicted model of the same protein · chain A against A, TM-score 0.98
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 O00214
- Elsewhere: RCSB PDB 3APB · PDBe 3APB · UniProt O00214
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.