Research workbench
Engineering the species-specificity of an inhibitory antibody targeting a modulator of tumor stroma
Analyse Engineering the species-specificity of an inhibitory antibody targeting a… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5D8I
- Type
- protein
- Length
- 475 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sulfhydryl oxidase 1
- EC
- 1.8.3.2
- UniProt
- Q8BND5
- Pockets
- 2 · best druggability 0.42
Structure
x-ray diffraction · 2 distinct chains · 33% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Sulfhydryl oxidase 1 (EC 1.8.3.2) | protein | 237 | 33% helix, 20% strand | Q8BND5 |
| B | Sulfhydryl oxidase 1 (EC 1.8.3.2) | protein | 238 | 34% helix, 20% strand | Q8BND5 |
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 93 | 0.42 | 0.78 | 17 | empty |
| 2 | 93 | 0.38 | 0.76 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 95 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 5D8I · Engineering the Species-Specificity of an Inhibitory Antibody Targeting a Modulator of… · the same entry in another collection · chain A against A, TM-score 1.00
- Q8BND5 · AlphaFold monomer V2.0 prediction for sulfhydryl oxidase 1 (Q8BND5) · a predicted model of the same protein · chain B 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 5D8I · PDBe 5D8I · UniProt Q8BND5
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