Research workbench
Mutant oxidoreductase fragment of mouse QSOX1 in complex with an antibody Fab
Analyse Mutant oxidoreductase fragment of mouse QSOX1 in complex with an antibody Fab in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6HF1
- Type
- protein
- Length
- 1,318 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sulfhydryl oxidase 1; Fab 316 heavy chain; Fab 316 light chain
- EC
- 1.8.3.2
- UniProt
- Q8BND5
- Pockets
- 10 · best druggability 0.83
Structure
x-ray diffraction · 5 distinct chains · 13% helix, 45% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D | Sulfhydryl oxidase 1 (EC 1.8.3.2) | protein | 238 | 33% helix, 20% strand | Q8BND5 |
| C | Fab 316 heavy chain | protein | 209 | 7% helix, 53% strand | — |
| B | Fab 316 light chain | protein | 211 | 6% helix, 51% strand | — |
| F | Fab 316 heavy chain | protein | 210 | 9% helix, 53% strand | — |
| E | Fab 316 light chain | protein | 212 | 6% helix, 53% strand | — |
Pockets
10 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 962 | 0.83 | 0.84 | 96 | empty |
| 2 | 849 | 0.81 | 0.84 | 88 | empty |
| 3 | 101 | 0.68 | 0.92 | 19 | empty |
| 4 | 184 | 0.53 | 0.78 | 28 | empty |
| 5 | 122 | 0.52 | 0.81 | 23 | empty |
Interfaces
14 interfaces between chains.
- C–B · 1730 Ų buried · 20 hydrogen bonds · protein-protein
- F–E · 1719 Ų buried · 19 hydrogen bonds · protein-protein
- C–F · 548 Ų buried · 2 hydrogen bonds · protein-protein
- C–D · 513 Ų buried · 5 hydrogen bonds · protein-protein
- D–F · 451 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 10 disulfide (disulfide).
Compared structures
- 6HF1 · Mutant oxidoreductase fragment of mouse QSOX1 in complex with an antibody Fab · the same entry in another collection · chain B against B, TM-score 1.00
- Q8BND5 · AlphaFold monomer V2.0 prediction for sulfhydryl oxidase 1 (Q8BND5) · 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 Q8BND5
- Elsewhere: RCSB PDB 6HF1 · PDBe 6HF1 · UniProt Q8BND5
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