Research workbench
Crystal structure of mouse galectin-9 N-terminal crd in complex with N-acetyllactosamine
Analyse Crystal structure of mouse galectin-9 N-terminal crd in complex with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2D6N
- Type
- protein
- Length
- 305 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Lectin, galactose binding, soluble 9
- Ligands
- NAG, GAL
- Pockets
- 3 · best druggability 0.69
Structure
x-ray diffraction · 2 distinct chains · 2% helix, 55% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Lectin, galactose binding, soluble 9 | protein | 152 | 2% helix, 56% strand | — |
| B | Lectin, galactose binding, soluble 9 | protein | 153 | 2% helix, 54% strand | — |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 2 copies · chains A, B
- GAL · beta-D-galactopyranose · sugar · 2 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 | 56 | 0.69 | 0.96 | 19 | empty |
| 2 | 54 | 0.27 | 0.73 | 15 | empty |
| 3 | 53 | 0.26 | 0.73 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 558 Ų buried · 9 hydrogen bonds · protein-protein
Compared structures
- 2D6N · Crystal structure of mouse galectin-9 N-terminal CRD in complex with N-acetyllactosamine · 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
- Elsewhere: RCSB PDB 2D6N · PDBe 2D6N
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.