Research workbench
Structural basis of HLX10 PD-1 receptor recognition, a promising anti-PD-1 antibody clinical candidate for cancer immunotherapy
Analyse Structural basis of HLX10 PD-1 receptor recognition, a promising anti-PD-1… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7E9B
- Type
- protein
- Length
- 536 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 1.78
- Source
- Homo sapiens
- Molecule
- heavy chain of Fab fragment of HLX10; light chain of Fab fragment of HLX10; Programmed…
- UniProt
- Q15116
- Pockets
- 4 · best druggability 0.54
Structure
x-ray diffraction · resolution 1.78 · 3 distinct chains · 6% helix, 51% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| H | heavy chain of Fab fragment of HLX10 | protein | 209 | 8% helix, 51% strand | — |
| L | light chain of Fab fragment of HLX10 | protein | 212 | 6% helix, 51% strand | — |
| C | Programmed cell death protein 1 | protein | 115 | 3% helix, 52% strand | Q15116 |
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 108 | 0.54 | 0.83 | 23 | empty |
| 2 | 284 | 0.52 | 0.75 | 38 | empty |
| 3 | 91 | 0.32 | 0.73 | 25 | empty |
| 4 | 65 | 0.29 | 0.74 | 17 | empty |
Interfaces
3 interfaces between chains.
- H–L · 1695 Ų buried · 12 hydrogen bonds · protein-protein
- H–C · 706 Ų buried · 15 hydrogen bonds · protein-protein
- L–C · 400 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 5 disulfide (disulfide).
Compared structures
- 7E9B · Structural basis of HLX10 pd-1 receptor recognition, a promising anti- pd-1 antibody… · the same entry in another collection · chain C against C, TM-score 1.00
- Q15116 · AlphaFold monomer V2.0 prediction for programmed cell death protein 1 (Q15116) · a predicted model of the same protein · chain C against A, TM-score 0.95
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 Q15116
- Elsewhere: RCSB PDB 7E9B · PDBe 7E9B · UniProt Q15116
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