Research workbench
Bacteroides multiple species beta-glucuronidase
Analyse Bacteroides multiple species beta-glucuronidase in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6D8K
- Type
- protein
- Length
- 2,085 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glycosyl hydrolase family 2, sugar binding domain protein
- UniProt
- A0A139KTC9
- Pockets
- 20 · best druggability 0.70
Structure
x-ray diffraction · 4 distinct chains · 19% helix, 31% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Glycosyl hydrolase family 2, sugar binding domain protein | protein | 570 | 18% helix, 32% strand | A0A139KTC9 |
| B | Glycosyl hydrolase family 2, sugar binding domain protein | protein | 571 | 20% helix, 31% strand | A0A139KTC9 |
| C | Glycosyl hydrolase family 2, sugar binding domain protein | protein | 569 | 18% helix, 31% strand | A0A139KTC9 |
| D | Glycosyl hydrolase family 2, sugar binding domain protein | protein | 375 | 20% helix, 26% strand | A0A139KTC9 |
Pockets
20 pockets found on a 1 Å grid, 17 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 821 | 0.70 | 0.76 | 76 | empty |
| 2 | 172 | 0.70 | 0.89 | 40 | empty |
| 3 | 444 | 0.68 | 0.80 | 50 | empty |
| 4 | 108 | 0.68 | 0.91 | 24 | empty |
| 5 | 404 | 0.65 | 0.79 | 52 | empty |
Interfaces
6 interfaces between chains.
- A–C · 2197 Ų buried · 21 hydrogen bonds · protein-protein
- B–D · 2169 Ų buried · 22 hydrogen bonds · protein-protein
- A–B · 1290 Ų buried · 11 hydrogen bonds · protein-protein
- C–D · 1281 Ų buried · 8 hydrogen bonds · protein-protein
- B–C · 16 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 6D8K · Bacteroides multiple species beta-glucuronidase · 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 A0A139KTC9
- Elsewhere: RCSB PDB 6D8K · PDBe 6D8K · UniProt A0A139KTC9
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