Research workbench
Geobacillus thermoglucosidasius gh family 52 xylosidase
Analyse Geobacillus thermoglucosidasius gh family 52 xylosidase in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4C1P
- Type
- protein
- Length
- 703 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Beta-xylosidase
- EC
- 3.2.1.37
- Ligands
- XYP, NA
- Pockets
- 5 · best druggability 0.59
Structure
x-ray diffraction · 1 distinct chain · 37% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Beta-xylosidase (EC 3.2.1.37) | protein | 703 | 37% helix, 22% strand | — |
Ligands and binding sites
- XYP · beta-D-xylopyranose · sugar · 2 copies · chains A
- NA · Sodium ion · metal · chains A
- PEG · Di(hydroxyethyl)ether · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 265 | 0.59 | 0.79 | 34 | empty |
| 2 | 81 | 0.39 | 0.77 | 14 | empty |
| 3 | 51 | 0.37 | 0.80 | 12 | empty |
| 4 | 53 | 0.36 | 0.79 | 13 | empty |
| 5 | 85 | 0.32 | 0.73 | 15 | empty |
Compared structures
- 4C1P · Geobacillus thermoglucosidasius GH family 52 xylosidase · 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 4C1P · PDBe 4C1P
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