Research workbench
X-ray structure of GLUCOSE/GALACTOSE receptor from salmonella typhimurium in complex with (2R)-glyceryl-beta-D-galactopyranoside
Analyse X-ray structure of GLUCOSE/GALACTOSE receptor from salmonella typhimurium in… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3GA5
- Type
- protein
- Length
- 610 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- D-galactose-binding periplasmic protein
- UniProt
- P23905
- Ligands
- RGG, CA, NA, SCN
- Pockets
- 1 · best druggability 0.69
Structure
x-ray diffraction · 1 distinct chain · 46% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | D-galactose-binding periplasmic protein | protein | 305 | 46% helix, 19% strand | P23905 |
Ligands and binding sites
- RGG · (2R)-2,3-dihydroxypropyl beta-D-galactopyranoside · ligand · 2 copies · chains A, B
- CA · Calcium ion · metal · 2 copies · chains A, B
- NA · Sodium ion · metal · 2 copies · chains A, B
- SCN · Thiocyanate ion · ion · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 50 | 0.69 | 0.98 | 19 | RGG |
Interfaces
1 interface between chains.
- A–B · 816 Ų buried · 16 hydrogen bonds · protein-protein
Compared structures
- 3GA5 · X-ray structure of glucose/galactose receptor from Salmonella typhimurium in complex with… · the same entry in another collection · chain A against A, TM-score 1.00
- P23905 · AlphaFold monomer V2.0 prediction for D-galactose-binding periplasmic protein (P23905) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 P23905
- Elsewhere: RCSB PDB 3GA5 · PDBe 3GA5 · UniProt P23905
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