MolNFT v1 · #114532 · protein
Lipomyces starkeyi levoglucosan kinase bound to levoglucosan
5BSB: “Lipomyces starkeyi levoglucosan kinase bound to levoglucosan”. X-ray diffraction, 2 ligands (4PW, SO4), 5 pockets (best druggability 0.78). MolNFT v1 #114532 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5BSB
- Type
- protein
- Length
- 433 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Levoglucosan kinase
- EC
- 2.7.-.-
- UniProt
- B3VI55
- Ligands
- 4PW, SO4
- Pockets
- 5 · best druggability 0.78
Structure
x-ray diffraction · 1 distinct chain · 40% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Levoglucosan kinase (EC 2.7.-.-) | protein | 433 | 40% helix, 22% strand | B3VI55 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 708 | 0.78 | 0.83 | 76 | 4PW, SO4 |
| 2 | 53 | 0.72 | 0.99 | 23 | empty |
| 3 | 64 | 0.36 | 0.78 | 16 | empty |
| 4 | 62 | 0.35 | 0.78 | 14 | empty |
| 5 | 60 | 0.34 | 0.77 | 15 | empty |
Compared structures
- 5BSB · Lipomyces starkeyi levoglucosan kinase bound to levoglucosan · 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 B3VI55
- Elsewhere: RCSB PDB 5BSB · PDBe 5BSB · UniProt B3VI55
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