Research workbench
Glucosamine kinase (crystal form B)
Analyse Glucosamine kinase (crystal form B) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6HWK
- Type
- protein
- Length
- 1,639 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glucosamine kinase
- UniProt
- A0A1H7TQR5
- Ligands
- MG, CL
- Pockets
- 17 · best druggability 0.73
Structure
x-ray diffraction · 4 distinct chains · 49% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Glucosamine kinase | protein | 412 | 49% helix, 18% strand | A0A1H7TQR5 |
| B | Glucosamine kinase | protein | 403 | 50% helix, 17% strand | A0A1H7TQR5 |
| C | Glucosamine kinase | protein | 408 | 49% helix, 18% strand | A0A1H7TQR5 |
| D | Glucosamine kinase | protein | 416 | 49% helix, 18% strand | A0A1H7TQR5 |
Ligands and binding sites
- MG · Magnesium ion · metal · 3 copies · chains A, C, D
- CL · Chloride ion · ion · 4 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
17 pockets found on a 1 Å grid, 11 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 818 | 0.73 | 0.77 | 76 | empty |
| 2 | 566 | 0.70 | 0.79 | 67 | empty |
| 3 | 1037 | 0.69 | 0.74 | 90 | empty |
| 4 | 492 | 0.66 | 0.78 | 49 | empty |
| 5 | 315 | 0.65 | 0.81 | 49 | empty |
Interfaces
4 interfaces between chains.
- A–D · 407 Ų buried · 8 hydrogen bonds · protein-protein
- B–C · 392 Ų buried · 8 hydrogen bonds · protein-protein
- C–D · 169 Ų buried · 2 hydrogen bonds · protein-protein
- B–D · 12 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 6HWK · Glucosamine kinase (crystal form B) · 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 A0A1H7TQR5
- Elsewhere: RCSB PDB 6HWK · PDBe 6HWK · UniProt A0A1H7TQR5
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