Research workbench
4,6-alpha-glucanotransferase gtfb from lactobacillus reuteri 121
Analyse 4,6-alpha-glucanotransferase gtfb from lactobacillus reuteri 121 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5JBD
- Type
- protein
- Length
- 1,709 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Inactive glucansucrase
- EC
- 2.4.1.5
- UniProt
- Q5SBM0
- Ligands
- CA, SO4
- Pockets
- 16 · best druggability 0.86
Structure
x-ray diffraction · 2 distinct chains · 30% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Inactive glucansucrase (EC 2.4.1.5) | protein | 854 | 30% helix, 18% strand | Q5SBM0 |
| B | Inactive glucansucrase (EC 2.4.1.5) | protein | 855 | 30% helix, 18% strand | Q5SBM0 |
Ligands and binding sites
- CA · Calcium ion · metal · 2 copies · chains A, B
- SO4 · Sulfate ion · ion · 4 copies · chains A, B
- GOL · Glycerol · additive · 9 copies · chains A, B
- ACT · Acetate ion · additive · 5 copies · chains A, B
- PGE · Triethylene glycol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
16 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1000 | 0.86 | 0.87 | 110 | GOL |
| 2 | 964 | 0.85 | 0.87 | 112 | GOL |
| 3 | 135 | 0.66 | 0.88 | 24 | empty |
| 4 | 77 | 0.62 | 0.90 | 24 | empty |
| 5 | 248 | 0.59 | 0.80 | 49 | empty |
Interfaces
1 interface between chains.
- A–B · 1155 Ų buried · 26 hydrogen bonds · protein-protein
Compared structures
- 5JBD · 4,6-alpha-glucanotransferase GTFB from Lactobacillus reuteri 121 · 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 Q5SBM0
- Elsewhere: RCSB PDB 5JBD · PDBe 5JBD · UniProt Q5SBM0
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.