MolNFT v1 · #141374 · protein
Crystal structure of a thermostable glycoside hydrolase family 43 {beta}-1,4-xylosidase from geobacillus thermoleovorans it-08
5Z5D · Beta-xylosidase: “Crystal structure of a thermostable glycoside hydrolase family 43 {beta}-1,4-xylosidase from geobacillus…”. X-ray diffraction, 1 ligand (CA), 4 pockets (best druggability 0.61). MolNFT v1 #141374 on GenesisL1: 3D…
- PDB
- 5Z5D
- Type
- protein
- Length
- 504 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Beta-xylosidase
- EC
- 3.2.1.37
- UniProt
- Q2I2N4
- Ligands
- CA
- Pockets
- 4 · best druggability 0.61
Structure
x-ray diffraction · 1 distinct chain · 3% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Beta-xylosidase (EC 3.2.1.37) | protein | 504 | 3% helix, 49% strand | Q2I2N4 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 279 | 0.61 | 0.79 | 21 | empty |
| 2 | 163 | 0.53 | 0.79 | 29 | GOL |
| 3 | 160 | 0.48 | 0.77 | 18 | empty |
| 4 | 165 | 0.44 | 0.74 | 24 | empty |
Compared structures
- 5Z5D · Crystal structure of a thermostable glycoside hydrolase family 43 {beta}-1,4-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
- Every structure of UniProt Q2I2N4
- Elsewhere: RCSB PDB 5Z5D · PDBe 5Z5D · UniProt Q2I2N4
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