Research workbench
Structure of invertase from schwanniomyces occidentalis
Analyse Structure of invertase from schwanniomyces occidentalis in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3KF5
- Type
- protein
- Length
- 1,020 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Invertase
- EC
- 3.2.1.26
- Ligands
- NAG
- Pockets
- 14 · best druggability 0.84
Structure
x-ray diffraction · 2 distinct chains · 1% helix, 48% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Invertase (EC 3.2.1.26) | protein | 512 | 1% helix, 48% strand | — |
| B | Invertase (EC 3.2.1.26) | protein | 508 | 1% helix, 47% strand | — |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 8 copies · chains A, B
- GOL · Glycerol · additive · 3 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
14 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 241 | 0.84 | 0.97 | 32 | empty |
| 2 | 249 | 0.83 | 0.95 | 37 | empty |
| 3 | 373 | 0.58 | 0.76 | 39 | empty |
| 4 | 361 | 0.57 | 0.76 | 36 | GOL |
| 5 | 239 | 0.55 | 0.77 | 28 | empty |
Interfaces
1 interface between chains.
- A–B · 2099 Ų buried · 32 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 glycan (N-glycosylation).
Compared structures
- 3KF5 · Structure of invertase from Schwanniomyces occidentalis · 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
- Elsewhere: RCSB PDB 3KF5 · PDBe 3KF5
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.