MolNFT v1 · #180016 · protein
Crystal structure of the GH95 alpha-L-1,2-fucosidase (XAC1774) from xanthomonas citri
7KMQ · GLYCO_HYD_65N_2 domain-containing protein: “Crystal structure of the GH95 alpha-L-1,2-fucosidase (XAC1774) from xanthomonas citri”. X-ray diffraction, 1 ligand (CA), 16 pockets (best druggability 0.82). MolNFT v1 #180016 on…
- PDB
- 7KMQ
- Type
- protein
- Length
- 1,507 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- GLYCO_HYD_65N_2 domain-containing protein
- UniProt
- Q8PLM1
- Ligands
- CA
- Pockets
- 16 · best druggability 0.82
Structure
x-ray diffraction · 2 distinct chains · 34% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | GLYCO_HYD_65N_2 domain-containing protein | protein | 753 | 35% helix, 28% strand | Q8PLM1 |
| B | GLYCO_HYD_65N_2 domain-containing protein | protein | 754 | 34% helix, 27% strand | Q8PLM1 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
16 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 172 | 0.82 | 0.97 | 27 | empty |
| 2 | 271 | 0.72 | 0.86 | 44 | empty |
| 3 | 467 | 0.70 | 0.81 | 79 | GOL |
| 4 | 253 | 0.70 | 0.86 | 42 | empty |
| 5 | 291 | 0.70 | 0.84 | 52 | empty |
Interfaces
1 interface between chains.
- A–B · 1341 Ų buried · 19 hydrogen bonds · protein-protein
Compared structures
- 7KMQ · Crystal structure of the GH95 alpha-L-1,2-fucosidase (Xac1774) from Xanthomonas citri · 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 Q8PLM1
- Elsewhere: RCSB PDB 7KMQ · PDBe 7KMQ · UniProt Q8PLM1
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