MolNFT v1 · #158533 · protein
Structure of mouse gilt, an enzyme involved in antigen processing
6NWX · Gamma-interferon-inducible lysosomal thiol reductase: “Structure of mouse gilt, an enzyme involved in antigen processing”. X-ray diffraction, 3 ligands (NAG, BMA, SO4), 4 pockets (best druggability 0.44). MolNFT v1 #158533 on…
- PDB
- 6NWX
- Type
- protein
- Length
- 382 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- 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 · 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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