Research workbench
Crystal structure of galactose 1-epimerase from lactobacillus acidophilus ncfm
Analyse Crystal structure of galactose 1-epimerase from lactobacillus acidophilus ncfm in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3IMH
- Type
- protein
- Length
- 664 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Galactose-1-epimerase
- EC
- 5.1.3.3
- UniProt
- Q5FJ46
- Ligands
- MG, CL
- Pockets
- 4 · best druggability 0.56
Structure
x-ray diffraction · 1 distinct chain · 9% helix, 46% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Galactose-1-epimerase (EC 5.1.3.3) | protein | 332 | 9% helix, 46% strand | Q5FJ46 |
Ligands and binding sites
- MG · Magnesium ion · metal · 3 copies · chains A, B
- CL · Chloride ion · ion · 3 copies · chains A, B
- GOL · Glycerol · additive · 8 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 138 | 0.56 | 0.82 | 24 | GOL |
| 2 | 120 | 0.54 | 0.82 | 25 | GOL |
| 3 | 258 | 0.50 | 0.75 | 31 | MG |
| 4 | 66 | 0.39 | 0.79 | 25 | empty |
Interfaces
1 interface between chains.
- A–B · 223 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 3IMH · CRYSTAL STRUCTURE OF GALACTOSE 1-EPIMERASE FROM Lactobacillus acidophilus NCFM · 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 Q5FJ46
- Elsewhere: RCSB PDB 3IMH · PDBe 3IMH · UniProt Q5FJ46
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