Research workbench
Microbacterium saccharophilum K-1 beta-fructofuranosidase mutant T47S/F447V/F470Y/P500S
Analyse Microbacterium saccharophilum K-1 beta-fructofuranosidase mutant… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3WPV
- Type
- protein
- Length
- 1,614 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Beta-fructofuranosidase
- EC
- 3.2.1.26
- UniProt
- Q8VW87
- Pockets
- 20 · best druggability 0.67
Structure
x-ray diffraction · 1 distinct chain · 16% helix, 37% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Beta-fructofuranosidase (EC 3.2.1.26) | protein | 538 | 16% helix, 37% strand | Q8VW87 |
Ligands and binding sites
- GOL · Glycerol · additive · 3 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 595 | 0.67 | 0.77 | 52 | empty |
| 2 | 485 | 0.64 | 0.77 | 41 | GOL |
| 3 | 431 | 0.63 | 0.77 | 42 | GOL |
| 4 | 393 | 0.63 | 0.78 | 50 | GOL |
| 5 | 215 | 0.55 | 0.79 | 34 | empty |
Interfaces
2 interfaces between chains.
- A–B · 460 Ų buried · 7 hydrogen bonds · protein-protein
- B–C · 297 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 3WPV · Microbacterium saccharophilum K-1 beta-fructofuranosidase mutant T47S/F447V/F470Y/P500S · 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 Q8VW87
- Elsewhere: RCSB PDB 3WPV · PDBe 3WPV · UniProt Q8VW87
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.