Research workbench
Crystal structure of the mutant D365A of pedobacter saltans GH31 alpha-galactosidase
Analyse Crystal structure of the mutant D365A of pedobacter saltans GH31… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4XPR
- Type
- protein
- Length
- 665 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Alpha-glucosidase
- EC
- 3.2.1.22
- Pockets
- 6 · best druggability 0.58
Structure
x-ray diffraction · 1 distinct chain · 23% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Alpha-glucosidase (EC 3.2.1.22) | protein | 665 | 23% helix, 27% strand | — |
Ligands and binding sites
- EDO · 1,2-ethanediol · additive · 6 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 290 | 0.58 | 0.77 | 37 | empty |
| 2 | 194 | 0.55 | 0.79 | 31 | EDO |
| 3 | 55 | 0.39 | 0.81 | 12 | empty |
| 4 | 73 | 0.37 | 0.77 | 17 | EDO |
| 5 | 84 | 0.37 | 0.75 | 15 | EDO |
Compared structures
- 4XPR · Crystal structure of the mutant D365A of Pedobacter saltans GH31 alpha-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
- Elsewhere: RCSB PDB 4XPR · PDBe 4XPR
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