Research workbench
Crystal structure of antibody PC283 in complex with PS1 peptide
Analyse Crystal structure of antibody PC283 in complex with PS1 peptide in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1KCR
- Type
- protein
- Length
- 446 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- PC283 immunoglobulin; PS1 peptide
- UniProt
- P01837, P01869
- Pockets
- 3 · best druggability 0.57
Structure
x-ray diffraction · 3 distinct chains · 4% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| L | PC283 immunoglobulin | protein | 213 | 4% helix, 49% strand | P01837 |
| H | PC283 immunoglobulin | protein | 218 | 4% helix, 52% strand | P01869 |
| P | PS1 peptide | protein | 15 | 0% helix, 0% strand | — |
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 434 | 0.57 | 0.74 | 44 | empty |
| 2 | 244 | 0.54 | 0.77 | 42 | empty |
| 3 | 74 | 0.32 | 0.74 | 20 | empty |
Interfaces
3 interfaces between chains.
- L–H · 1723 Ų buried · 9 hydrogen bonds · protein-protein
- L–P · 551 Ų buried · 11 hydrogen bonds · protein-protein
- H–P · 307 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 1KCR · Crystal structure of antibody PC283 in complex with PS1 peptide · the same entry in another collection · chain L against L, TM-score 1.00
- P01869 · AlphaFold monomer V2.0 prediction for ig gamma-1 chain C region, membrane-bound form… · a predicted model of the same protein · chain H against A, TM-score 0.51
- P01837 · AlphaFold monomer V2.0 prediction for immunoglobulin kappa constant (P01837) · a predicted model of the same protein · chain L against A, TM-score 0.49
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 P01837
- Every structure of UniProt P01869
- Elsewhere: RCSB PDB 1KCR · PDBe 1KCR · UniProt P01837 · UniProt P01869
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