MolNFT v1 · #119256 · protein
The details of glycolipid glycan hydrolysis by the structural analysis of a family 123 glycoside hydrolase from clostridium perfringens
5FQH · Beta-N-acetylgalactosaminidase: “The details of glycolipid glycan hydrolysis by the structural analysis of a family 123 glycoside hydrolase…”. X-ray diffraction, 4 ligands (BGC, GAL, NGA), 8 pockets (best druggability 0.63). MolNFT…
- PDB
- 5FQH
- Type
- protein
- Length
- 581 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Beta-N-acetylgalactosaminidase
- UniProt
- A0A0H2YNR7
- Ligands
- BGC, GAL, NGA, PO4
- Pockets
- 8 · best druggability 0.63
Structure
x-ray diffraction · 1 distinct chain · 32% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Beta-N-acetylgalactosaminidase | protein | 581 | 32% helix, 28% strand | A0A0H2YNR7 |
Ligands and binding sites
- BGC · beta-D-glucopyranose · sugar · chains A
- GAL · beta-D-galactopyranose · sugar · chains A
- NGA · 2-acetamido-2-deoxy-beta-D-galactopyranose · sugar · chains A
- PO4 · Phosphate ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 303 | 0.63 | 0.80 | 35 | empty |
| 2 | 261 | 0.59 | 0.79 | 38 | GAL, NGA |
| 3 | 178 | 0.50 | 0.77 | 23 | empty |
| 4 | 80 | 0.41 | 0.79 | 17 | empty |
| 5 | 138 | 0.40 | 0.74 | 29 | empty |
Compared structures
- 5FQH · The details of glycolipid glycan hydrolysis by the structural analysis of a family 123… · 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 A0A0H2YNR7
- Elsewhere: RCSB PDB 5FQH · PDBe 5FQH · UniProt A0A0H2YNR7
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.