Research workbench
Alpha-L-fucosidase alfc fucosyltransferase mutant N243A
Analyse Alpha-L-fucosidase alfc fucosyltransferase mutant N243A in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6O1J
- Type
- protein
- Length
- 2,590 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Alfc
- EC
- 3.2.1.51
- UniProt
- K0NB39
- Ligands
- FUL
- Pockets
- 20 · best druggability 0.77
Structure
x-ray diffraction · 8 distinct chains · 39% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Alfc (EC 3.2.1.51) | protein | 329 | 39% helix, 15% strand | K0NB39 |
| B | Alfc (EC 3.2.1.51) | protein | 324 | 39% helix, 15% strand | K0NB39 |
| C | Alfc (EC 3.2.1.51) | protein | 323 | 38% helix, 15% strand | K0NB39 |
| D | Alfc (EC 3.2.1.51) | protein | 324 | 39% helix, 15% strand | K0NB39 |
| E | Alfc (EC 3.2.1.51) | protein | 327 | 38% helix, 15% strand | K0NB39 |
| F | Alfc (EC 3.2.1.51) | protein | 323 | 40% helix, 15% strand | K0NB39 |
| G | Alfc (EC 3.2.1.51) | protein | 317 | 40% helix, 15% strand | K0NB39 |
| H | Alfc (EC 3.2.1.51) | protein | 323 | 38% helix, 15% strand | K0NB39 |
Ligands and binding sites
- FUL · beta-L-fucopyranose · sugar · 8 copies · chains A, B, C, D, E, F, G, H
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 15 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 843 | 0.77 | 0.80 | 77 | empty |
| 2 | 58 | 0.72 | 0.98 | 20 | empty |
| 3 | 55 | 0.70 | 0.97 | 18 | empty |
| 4 | 367 | 0.60 | 0.76 | 46 | FUL |
| 5 | 212 | 0.59 | 0.80 | 33 | FUL |
Interfaces
11 interfaces between chains.
- E–G · 1282 Ų buried · 11 hydrogen bonds · protein-protein
- A–C · 1274 Ų buried · 11 hydrogen bonds · protein-protein
- C–G · 619 Ų buried · 4 hydrogen bonds · protein-protein
- A–E · 601 Ų buried · 6 hydrogen bonds · protein-protein
- A–B · 410 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 6O1J · Alpha-L-fucosidase AlfC fucosyltransferase mutant N243A · 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 K0NB39
- Elsewhere: RCSB PDB 6O1J · PDBe 6O1J · UniProt K0NB39
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