Research workbench
Human IgE against the major allergen Bet v 1 - Crystal structure of clone M0418 scFv
Analyse Human IgE against the major allergen Bet v 1 - Crystal structure of clone M0418… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4BUH
- Type
- protein
- Length
- 469 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 1.3
- Source
- HOMO SAPIENS
- Molecule
- Clone M0418 scfv
- Pockets
- 2 · best druggability 0.80
Structure
x-ray diffraction · resolution 1.3 · 2 distinct chains · 6% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Clone M0418 scfv | protein | 237 | 5% helix, 50% strand | — |
| B | Clone M0418 scfv | protein | 232 | 7% helix, 51% strand | — |
Ligands and binding sites
- EDO · 1,2-ethanediol · additive · 4 copies · chains A, B
- PEG · Di(hydroxyethyl)ether · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1086 | 0.80 | 0.81 | 109 | empty |
| 2 | 63 | 0.42 | 0.81 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 586 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide, 2 modified (disulfide, cyclization).
Compared structures
- 4BUH · Human IgE against the major allergen bet V 1 - crystal structure of clone M0418 scfv · the same entry in another collection · chain A against A, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Elsewhere: RCSB PDB 4BUH · PDBe 4BUH
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