Research workbench
Structure of GAN1D-E170Q, a catalytic mutant of a putative 6-phospho- beta-galactosidase from geobacillus stearothermophilus
Analyse Structure of GAN1D-E170Q, a catalytic mutant of a putative 6-phospho… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4ZE5
- Type
- protein
- Length
- 1,838 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative 6-phospho-beta-galactobiosidase
- EC
- 3.2.1.85
- UniProt
- W8QF82
- Pockets
- 10 · best druggability 0.77
Structure
x-ray diffraction · 2 distinct chains · 42% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Putative 6-phospho-beta-galactobiosidase (EC 3.2.1.85) | protein | 459 | 42% helix, 17% strand | W8QF82 |
| C, D | Putative 6-phospho-beta-galactobiosidase (EC 3.2.1.85) | protein | 460 | 42% helix, 17% strand | W8QF82 |
Ligands and binding sites
- GOL · Glycerol · additive · 10 copies · chains A, B, C, D
- IMD · Imidazole · additive · 3 copies · chains A, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1169 | 0.77 | 0.79 | 113 | empty |
| 2 | 820 | 0.73 | 0.78 | 67 | empty |
| 3 | 821 | 0.73 | 0.78 | 69 | empty |
| 4 | 739 | 0.73 | 0.79 | 65 | empty |
| 5 | 530 | 0.66 | 0.77 | 52 | empty |
Interfaces
4 interfaces between chains.
- C–D · 371 Ų buried · 3 hydrogen bonds · protein-protein
- A–C · 315 Ų buried · 4 hydrogen bonds · protein-protein
- A–B · 315 Ų buried · 2 hydrogen bonds · protein-protein
- B–D · 258 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 4ZE5 · Structure of Gan1D-E170Q, a catalytic mutant of a putative 6-phospho-beta-galactosidase… · 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 W8QF82
- Elsewhere: RCSB PDB 4ZE5 · PDBe 4ZE5 · UniProt W8QF82
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.