Research workbench
Structure of sgbp BO2743 from bacteroides ovatus
Analyse Structure of sgbp BO2743 from bacteroides ovatus in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7O8C
- Type
- protein
- Length
- 1,161 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Surface glycan-binding protein BO2743
- UniProt
- A7LY27
- Ligands
- SO4, AZI
- Pockets
- 16 · best druggability 0.86
Structure
x-ray diffraction · 2 distinct chains · 56% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Surface glycan-binding protein BO2743 | protein | 582 | 56% helix, 5% strand | A7LY27 |
| B | Surface glycan-binding protein BO2743 | protein | 579 | 56% helix, 5% strand | A7LY27 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 11 copies · chains A, B
- AZI · Azide ion · ion · 3 copies · chains A, B
- GOL · Glycerol · additive · 9 copies · chains A, B
- BME · Beta-mercaptoethanol · additive · 5 copies · chains A, B
- HED · 2-hydroxyethyl disulfide · additive · 4 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
16 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1046 | 0.86 | 0.87 | 77 | HED, BME |
| 2 | 316 | 0.62 | 0.79 | 42 | empty |
| 3 | 229 | 0.57 | 0.79 | 32 | AZI |
| 4 | 312 | 0.56 | 0.76 | 47 | GOL |
| 5 | 192 | 0.48 | 0.76 | 28 | SO4 |
Interfaces
1 interface between chains.
- A–B · 2094 Ų buried · 21 hydrogen bonds · protein-protein
Compared structures
- 7O8C · Structure of SGBP BO2743 from Bacteroides ovatus · 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 A7LY27
- Elsewhere: RCSB PDB 7O8C · PDBe 7O8C · UniProt A7LY27
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