Research workbench
Nucleophile mutant (E324A) of beta-(1,6)-galactosidase from bifidobacterium animalis subsp. lactis bl-04
Analyse Nucleophile mutant (E324A) of beta-(1,6)-galactosidase from bifidobacterium… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4UOQ
- Type
- protein
- Length
- 2,049 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Beta-galactosidase
- EC
- 3.2.1.23
- UniProt
- C6A6W5
- Ligands
- ZN
- Pockets
- 20 · best druggability 0.79
Structure
x-ray diffraction · 3 distinct chains · 33% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Beta-galactosidase (EC 3.2.1.23) | protein | 683 | 33% helix, 24% strand | C6A6W5 |
| B | Beta-galactosidase (EC 3.2.1.23) | protein | 684 | 33% helix, 24% strand | C6A6W5 |
| C | Beta-galactosidase (EC 3.2.1.23) | protein | 682 | 33% helix, 24% strand | C6A6W5 |
Ligands and binding sites
- ZN · Zinc ion · metal · chains A, B, C
- PEG · Di(hydroxyethyl)ether · additive · 10 copies · chains A, B, C
- PGE · Triethylene glycol · additive · 4 copies · chains A, B, C
- PG4 · Tetraethylene glycol · additive · 2 copies · chains A, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 13 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 928 | 0.79 | 0.81 | 102 | PEG |
| 2 | 940 | 0.78 | 0.80 | 92 | PG4 |
| 3 | 550 | 0.73 | 0.81 | 72 | empty |
| 4 | 149 | 0.71 | 0.91 | 37 | empty |
| 5 | 135 | 0.71 | 0.92 | 36 | empty |
Interfaces
3 interfaces between chains.
- A–B · 2423 Ų buried · 37 hydrogen bonds · protein-protein
- B–C · 2422 Ų buried · 36 hydrogen bonds · protein-protein
- A–C · 2405 Ų buried · 39 hydrogen bonds · protein-protein
Compared structures
- 4UOQ · Nucleophile mutant (E324A) of beta-(1,6)-galactosidase from Bifidobacterium animalis… · the same entry in another collection · chain B against B, 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 C6A6W5
- Elsewhere: RCSB PDB 4UOQ · PDBe 4UOQ · UniProt C6A6W5
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.