MolNFT v1 · #108893 · protein
Crystal structure of mouse xyloside xylosyltransferase 1, apo form
4WLG: “Crystal structure of mouse xyloside xylosyltransferase 1, apo form”. X-ray diffraction, 1 ligand (SO4), 6 pockets (best druggability 0.68). MolNFT v1 #108893 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 4WLG
- Type
- protein
- Length
- 576 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Xyloside xylosyltransferase 1
- EC
- 2.4.2.-
- UniProt
- Q3U4G3
- Ligands
- SO4
- Pockets
- 6 · best druggability 0.68
Structure
x-ray diffraction · 2 distinct chains · 43% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Xyloside xylosyltransferase 1 (EC 2.4.2.-) | protein | 286 | 44% helix, 18% strand | Q3U4G3 |
| B | Xyloside xylosyltransferase 1 (EC 2.4.2.-) | protein | 290 | 43% helix, 19% strand | Q3U4G3 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 5 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 287 | 0.68 | 0.83 | 30 | empty |
| 2 | 430 | 0.62 | 0.76 | 35 | SO4 |
| 3 | 397 | 0.61 | 0.77 | 35 | SO4 |
| 4 | 163 | 0.46 | 0.76 | 23 | empty |
| 5 | 73 | 0.40 | 0.79 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 837 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 4WLG · crystal structure of mouse Xyloside xylosyltransferase 1, apo form · the same entry in another collection · chain A against A, TM-score 1.00
- Q3U4G3 · AlphaFold monomer V2.0 prediction for xyloside xylosyltransferase 1 (Q3U4G3) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 Q3U4G3
- Elsewhere: RCSB PDB 4WLG · PDBe 4WLG · UniProt Q3U4G3
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