Research workbench
Eubacterium eligens beta-glucuronidase bound to UNC4917 glucuronic acid conjugate
Analyse Eubacterium eligens beta-glucuronidase bound to UNC4917 glucuronic acid… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6BO6
- Type
- protein
- Length
- 493 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.801
- Source
- Eubacterium eligens (strain ATCC 27750 / VPI C15-48)
- Molecule
- Glycoside Hydrolase Family 2 candidate b-glucuronidase
- UniProt
- C4Z6Z2
- Ligands
- E0V
- Pockets
- 5 · best druggability 0.65
Structure
x-ray diffraction · resolution 2.801 · 1 distinct chain · 21% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Glycoside Hydrolase Family 2 candidate b-glucuronidase | protein | 493 | 21% helix, 27% strand | C4Z6Z2 |
Ligands and binding sites
- E0V · 4-(4-beta-D-glucopyranuronosylpiperazin-1-yl)-2,7-bis(methylamino)pyrido[3',2':4,5]thieno[3,2-d]pyrimidine · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 155 | 0.65 | 0.86 | 26 | E0V |
| 2 | 233 | 0.58 | 0.80 | 42 | empty |
| 3 | 192 | 0.49 | 0.76 | 25 | empty |
| 4 | 66 | 0.35 | 0.77 | 14 | empty |
| 5 | 50 | 0.32 | 0.77 | 15 | empty |
Compared structures
- 6BO6 · Eubacterium eligens beta-glucuronidase bound to UNC4917 glucuronic acid conjugate · 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 C4Z6Z2
- Elsewhere: RCSB PDB 6BO6 · PDBe 6BO6 · UniProt C4Z6Z2
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