Research workbench
The structure of a beta-glucuronidase from glycoside hydrolase family 2
Analyse The structure of a beta-glucuronidase from glycoside hydrolase family 2 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6HPD
- Type
- protein
- Length
- 955 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Beta-galactosidase (GH2)
- EC
- 3.2.1.23
- UniProt
- T2KN75
- Ligands
- MG, BR
- Pockets
- 9 · best druggability 0.75
Structure
x-ray diffraction · 1 distinct chain · 12% helix, 38% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Beta-galactosidase (GH2) (EC 3.2.1.23) | protein | 955 | 12% helix, 38% strand | T2KN75 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 818 | 0.75 | 0.79 | 53 | empty |
| 2 | 273 | 0.71 | 0.86 | 42 | empty |
| 3 | 53 | 0.67 | 0.96 | 20 | empty |
| 4 | 62 | 0.66 | 0.94 | 21 | empty |
| 5 | 292 | 0.58 | 0.78 | 42 | empty |
Compared structures
- 6HPD · The structure of a beta-glucuronidase from glycoside hydrolase family 2 · the same entry in another collection · chain A against A, TM-score 1.00
- T2KN75 · AlphaFold monomer V2.0 prediction for beta-glucuronidase (T2KN75) · a predicted model of the same protein · chain A against A, TM-score 0.88
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 T2KN75
- Elsewhere: RCSB PDB 6HPD · PDBe 6HPD · UniProt T2KN75
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