Research workbench
Structure of mouse GILT, an enzyme involved in antigen processing
Analyse Structure of mouse GILT, an enzyme involved in antigen processing in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6NWX
- Type
- protein
- Length
- 382 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2
- Source
- Mus musculus
- Molecule
- Gamma-interferon-inducible lysosomal thiol reductase
- EC
- 1.8.-.-
- UniProt
- Q9ESY9
- Ligands
- NAG, BMA, SO4
- Pockets
- 4 · best druggability 0.44
Structure
x-ray diffraction · resolution 2 · 2 distinct chains · 53% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Gamma-interferon-inducible lysosomal thiol reductase (EC 1.8.-.-) | protein | 189 | 53% helix, 16% strand | Q9ESY9 |
| B | Gamma-interferon-inducible lysosomal thiol reductase (EC 1.8.-.-) | protein | 193 | 52% helix, 16% strand | Q9ESY9 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 6 copies · chains A, B
- BMA · beta-D-mannopyranose · sugar · 2 copies
- SO4 · Sulfate ion · ion · 7 copies · chains A, B
- 1PE · Pentaethylene glycol · additive · 4 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 106 | 0.44 | 0.78 | 22 | 1PE |
| 2 | 95 | 0.42 | 0.78 | 21 | 1PE |
| 3 | 86 | 0.35 | 0.75 | 16 | 1PE |
| 4 | 69 | 0.32 | 0.75 | 14 | 1PE |
Interfaces
1 interface between chains.
- A–B · 1281 Ų buried · 19 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 9 disulfide, 4 glycan (disulfide, N-glycosylation).
Compared structures
- 6NWX · Structure of mouse gilt, an enzyme involved in antigen processing · the same entry in another collection · chain A against A, TM-score 1.00
- Q9ESY9 · AlphaFold monomer V2.0 prediction for gamma-interferon-inducible lysosomal thiol… · 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 Q9ESY9
- Elsewhere: RCSB PDB 6NWX · PDBe 6NWX · UniProt Q9ESY9
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