Research workbench
The structural basis of repertoire shift in an immune response to phosphocholine
Analyse The structural basis of repertoire shift in an immune response to phosphocholine in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1DL7
- Type
- protein
- Length
- 221 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein (antibody M3C65 (light chain)); Protein (antibody M3C65 (heavy chain))
- Ligands
- NCH
- Pockets
- 2 · best druggability 0.66
Structure
x-ray diffraction · 2 distinct chains · 4% helix, 43% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| L | Protein (antibody M3C65 (light chain)) | protein | 109 | 3% helix, 50% strand | — |
| H | Protein (antibody M3C65 (heavy chain)) | protein | 112 | 5% helix, 37% strand | — |
Ligands and binding sites
- NCH · P-nitrophenyl-phosphocholine · ligand · chains L, H
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 | 137 | 0.66 | 0.87 | 28 | NCH |
| 2 | 77 | 0.31 | 0.74 | 24 | empty |
Interfaces
1 interface between chains.
- L–H · 723 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 1DL7 · The structural basis of repertoire shift in an immune response to phosphocholine · the same entry in another collection · chain L against L, 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 1DL7 · PDBe 1DL7
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.