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Crystal structure of endo-1,4-beta-xylanase from caldicellulosiruptor owensensis
Analyse Crystal structure of endo-1,4-beta-xylanase from caldicellulosiruptor owensensis in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5Y3X
- Type
- protein
- Length
- 1,974 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Beta-xylanase
- EC
- 3.2.1.8
- UniProt
- E4Q2A4
- Pockets
- 14 · best druggability 0.79
Structure
x-ray diffraction · 1 distinct chain · 40% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F | Beta-xylanase (EC 3.2.1.8) | protein | 329 | 40% helix, 20% strand | E4Q2A4 |
Pockets
14 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1132 | 0.79 | 0.81 | 111 | empty |
| 2 | 792 | 0.77 | 0.81 | 84 | empty |
| 3 | 968 | 0.76 | 0.79 | 101 | empty |
| 4 | 645 | 0.74 | 0.80 | 57 | empty |
| 5 | 231 | 0.55 | 0.78 | 34 | empty |
Interfaces
8 interfaces between chains.
- D–F · 626 Ų buried · 7 hydrogen bonds · protein-protein
- A–B · 610 Ų buried · 7 hydrogen bonds · protein-protein
- D–E · 593 Ų buried · 8 hydrogen bonds · protein-protein
- A–E · 581 Ų buried · 8 hydrogen bonds · protein-protein
- B–D · 559 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 5Y3X · Crystal structure of endo-1,4-beta-xylanase from Caldicellulosiruptor owensensis · 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 E4Q2A4
- Elsewhere: RCSB PDB 5Y3X · PDBe 5Y3X · UniProt E4Q2A4
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