Research workbench
Engineering the active site of a GH43 glycoside hydrolase generates a biotechnologically significant enzyme that displays both endo- xylanase and exo-arabinofuranosidase activity
Analyse Engineering the active site of a GH43 glycoside hydrolase generates a… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3ZXL
- Type
- protein
- Length
- 1,063 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- HIAXHD3
- EC
- 3.2.1.55
- Pockets
- 8 · best druggability 0.65
Structure
x-ray diffraction · 2 distinct chains · 4% helix, 47% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | HIAXHD3 (EC 3.2.1.55) | protein | 530 | 4% helix, 47% strand | — |
| B | HIAXHD3 (EC 3.2.1.55) | protein | 533 | 4% helix, 47% strand | — |
Ligands and binding sites
- B3P · 2-[3-(2-hydroxy-1,1-dihydroxymethyl-ethylamino)-propylamino]-2-hydroxymethyl-propane-1,3-diol · additive · 2 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, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 551 | 0.65 | 0.76 | 78 | empty |
| 2 | 318 | 0.57 | 0.76 | 34 | empty |
| 3 | 216 | 0.56 | 0.79 | 21 | empty |
| 4 | 213 | 0.56 | 0.79 | 22 | empty |
| 5 | 237 | 0.55 | 0.77 | 30 | B3P |
Interfaces
1 interface between chains.
- A–B · 354 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 3ZXL · Engineering the active site of a GH43 glycoside hydrolase generates a biotechnologically… · 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 3ZXL · PDBe 3ZXL
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.