Research workbench
Semi-active E176Q mutant of rice BGLU1, a plant EXOGLUCANASE/BETA- glucosidase
Analyse Semi-active E176Q mutant of rice BGLU1, a plant EXOGLUCANASE/BETA- glucosidase in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3F5L
- Type
- protein
- Length
- 944 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Beta-glucosidase
- EC
- 3.2.1.21
- UniProt
- Q42975
- Ligands
- BGC, ZN, SO4
- Pockets
- 5 · best druggability 0.68
Structure
x-ray diffraction · 1 distinct chain · 45% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Beta-glucosidase (EC 3.2.1.21) | protein | 472 | 45% helix, 16% strand | Q42975 |
Ligands and binding sites
- BGC · beta-D-glucopyranose · sugar · 4 copies · chains A, B
- ZN · Zinc ion · metal · chains A, B
- SO4 · Sulfate ion · ion · 2 copies · chains A, B
- MES · 2-(N-morpholino)-ethanesulfonic acid · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 444 | 0.68 | 0.79 | 38 | BGC |
| 2 | 425 | 0.68 | 0.80 | 41 | BGC |
| 3 | 328 | 0.56 | 0.75 | 34 | empty |
| 4 | 325 | 0.55 | 0.75 | 34 | empty |
| 5 | 65 | 0.29 | 0.74 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 611 Ų buried · 10 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 3F5L · Semi-active E176Q mutant of rice BGlu1, a plant exoglucanase/beta-glucosidase · 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 Q42975
- Elsewhere: RCSB PDB 3F5L · PDBe 3F5L · UniProt Q42975
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