Research workbench
Crystal structure of GH30 xylanase B from Talaromyces cellulolyticus
Analyse Crystal structure of GH30 xylanase B from Talaromyces cellulolyticus in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6IUJ
- Type
- protein
- Length
- 908 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.25
- Source
- Talaromyces cellulolyticus CF-2612
- Molecule
- GH30 Xylanase B
- Ligands
- NAG, BMA, MAN
- Pockets
- 8 · best druggability 0.76
Structure
x-ray diffraction · resolution 2.25 · 1 distinct chain · 23% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | GH30 Xylanase B | protein | 454 | 23% helix, 29% strand | — |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 21 copies · chains A, B
- BMA · beta-D-mannopyranose · sugar · 6 copies · chains A, B
- MAN · alpha-D-mannopyranose · sugar · 6 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 957 | 0.76 | 0.79 | 101 | empty |
| 2 | 135 | 0.42 | 0.75 | 28 | empty |
| 3 | 146 | 0.42 | 0.75 | 30 | empty |
| 4 | 51 | 0.39 | 0.81 | 17 | empty |
| 5 | 97 | 0.37 | 0.75 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 443 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 12 glycan, 4 disulfide (N-glycosylation, disulfide).
Compared structures
- 6IUJ · Crystal structure of GH30 xylanase B from talaromyces cellulolyticus · 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 6IUJ · PDBe 6IUJ
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