Research workbench
Generation and characterization of a unique reagent that recognizes a panel of recombinant human monoclonal antibody therapeutics in the presence of endogenous human IgG
Analyse Generation and characterization of a unique reagent that recognizes a panel of… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4K7P
- Type
- protein
- Length
- 859 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Antibody RHUMAB6 Fab fragment light chain; Antibody RHUMAB6 Fab fragment heavy chain…
- Pockets
- 10 · best druggability 0.76
Structure
x-ray diffraction · 4 distinct chains · 6% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| X | Antibody RHUMAB6 Fab fragment light chain | protein | 213 | 6% helix, 53% strand | — |
| Y | Antibody RHUMAB6 Fab fragment heavy chain | protein | 219 | 7% helix, 55% strand | — |
| H | Antibody 10C4 Fab fragment heavy chain | protein | 213 | 6% helix, 46% strand | — |
| L | Antibody 10C4 Fab fragment light chain | protein | 214 | 6% helix, 48% strand | — |
Pockets
10 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1054 | 0.76 | 0.78 | 90 | empty |
| 2 | 260 | 0.68 | 0.84 | 36 | empty |
| 3 | 251 | 0.53 | 0.76 | 34 | empty |
| 4 | 95 | 0.53 | 0.84 | 26 | empty |
| 5 | 236 | 0.46 | 0.73 | 41 | empty |
Interfaces
6 interfaces between chains.
- X–Y · 1823 Ų buried · 16 hydrogen bonds · protein-protein
- H–L · 1774 Ų buried · 14 hydrogen bonds · protein-protein
- Y–H · 972 Ų buried · 16 hydrogen bonds · protein-protein
- X–H · 279 Ų buried · 5 hydrogen bonds · protein-protein
- Y–L · 148 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 4K7P · Generation and Characterization of a Unique Reagent that Recognizes a Panel of… · the same entry in another collection · chain X against X, 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 4K7P · PDBe 4K7P
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