Research workbench
Bacterial beta-1,3-oligosaccharide phosphorylase from GH149
Analyse Bacterial beta-1,3-oligosaccharide phosphorylase from GH149 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6HQ6
- Type
- protein
- Length
- 2,268 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.05
- Source
- metagenome
- Molecule
- Bacterial beta-1,3-oligosaccharide phosphorylase
- EC
- 2.4.1.-
- Ligands
- BCN, SO4, CL
- Pockets
- 20 · best druggability 0.85
Structure
x-ray diffraction · resolution 2.05 · 2 distinct chains · 39% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Bacterial beta-1,3-oligosaccharide phosphorylase (EC 2.4.1.-) | protein | 1135 | 39% helix, 25% strand | — |
| B | Bacterial beta-1,3-oligosaccharide phosphorylase (EC 2.4.1.-) | protein | 1133 | 39% helix, 26% strand | — |
Ligands and binding sites
- BCN · Bicine · ligand · 2 copies · chains A, B
- SO4 · Sulfate ion · ion · 4 copies · chains A, B
- CL · Chloride ion · ion · 4 copies · chains A, B
- EDO · 1,2-ethanediol · additive · 17 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 539 | 0.85 | 0.91 | 94 | EDO |
| 2 | 277 | 0.84 | 0.95 | 48 | empty |
| 3 | 954 | 0.79 | 0.81 | 95 | SO4, BCN, EDO |
| 4 | 898 | 0.77 | 0.80 | 74 | SO4, BCN, EDO |
| 5 | 254 | 0.77 | 0.90 | 44 | empty |
Interfaces
1 interface between chains.
- A–B · 4358 Ų buried · 58 hydrogen bonds · protein-protein
Compared structures
- 6HQ6 · Bacterial beta-1,3-oligosaccharide phosphorylase from GH149 · 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 6HQ6 · PDBe 6HQ6
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