Research workbench
Structural characterization of the thermostable bradyrhizobium japonicum D-sorbitol dehydrogenase
Analyse Structural characterization of the thermostable bradyrhizobium japonicum… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5JO9
- Type
- protein
- Length
- 239 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ribitol 2-dehydrogenase
- UniProt
- Q89FN7
- Ligands
- SOR, PO4
- Pockets
- 2 · best druggability 0.73
Structure
x-ray diffraction · 1 distinct chain · 46% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ribitol 2-dehydrogenase | protein | 239 | 46% helix, 17% strand | Q89FN7 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 342 | 0.73 | 0.85 | 47 | PO4, SOR |
| 2 | 54 | 0.30 | 0.76 | 12 | empty |
Compared structures
- 5JO9 · Structural characterization of the thermostable Bradyrhizobium japonicum d-sorbitol… · 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 Q89FN7
- Elsewhere: RCSB PDB 5JO9 · PDBe 5JO9 · UniProt Q89FN7
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