Research workbench
Soluble quinoprotein glucose dehydrogenase from acinetobacter calcoaceticus
Analyse Soluble quinoprotein glucose dehydrogenase from acinetobacter calcoaceticus in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1QBI
- Type
- protein
- Length
- 870 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Soluble quinoprotein glucose dehydrogenase
- EC
- 1.1.99.17
- UniProt
- P13650
- Ligands
- CA, PT
- Pockets
- 10 · best druggability 0.71
Structure
x-ray diffraction · 2 distinct chains · 4% helix, 37% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Soluble quinoprotein glucose dehydrogenase (EC 1.1.99.17) | protein | 434 | 4% helix, 37% strand | P13650 |
| B | Soluble quinoprotein glucose dehydrogenase (EC 1.1.99.17) | protein | 436 | 4% helix, 38% strand | P13650 |
Ligands and binding sites
- CA · Calcium ion · metal · 6 copies · chains A, B
- PT · Platinum (II) ion · metal · 2 copies · chains A, B
- GOL · Glycerol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 72 | 0.71 | 0.96 | 20 | empty |
| 2 | 389 | 0.68 | 0.81 | 37 | empty |
| 3 | 450 | 0.67 | 0.79 | 59 | CA |
| 4 | 419 | 0.67 | 0.79 | 34 | empty |
| 5 | 440 | 0.66 | 0.79 | 57 | CA |
Interfaces
1 interface between chains.
- A–B · 1206 Ų buried · 24 hydrogen bonds · protein-protein
Compared structures
- 1QBI · Soluble quinoprotein glucose dehydrogenase from acinetobacter calcoaceticus · the same entry in another collection · chain A against A, TM-score 1.00
- P13650 · AlphaFold monomer V2.0 prediction for quinoprotein glucose dehydrogenase B (P13650) · a predicted model of the same protein · chain B 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 P13650
- Elsewhere: RCSB PDB 1QBI · PDBe 1QBI · UniProt P13650
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.