MolNFT v1 · #4348 · protein
The structural basis of repertoire shift in an immune response to phosphocholine
1DL7 · Protein (antibody M3C65 (light chain)): “The structural basis of repertoire shift in an immune response to phosphocholine”. X-ray diffraction, 1 ligand (NCH), 2 pockets (best druggability 0.66). MolNFT v1 #4348 on GenesisL1: 3D…
- 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
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