Research workbench
The crystal structure of natural killer cell receptor LY49C
Analyse The crystal structure of natural killer cell receptor LY49C in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3C8J
- Type
- protein
- Length
- 509 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Natural killer cell receptor LY49C
- UniProt
- Q61198
- Pockets
- 7 · best druggability 0.83
Structure
x-ray diffraction · 3 distinct chains · 20% helix, 36% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Natural killer cell receptor LY49C | protein | 127 | 20% helix, 36% strand | Q61198 |
| B, C | Natural killer cell receptor LY49C | protein | 126 | 20% helix, 37% strand | Q61198 |
| D | Natural killer cell receptor LY49C | protein | 130 | 21% helix, 35% strand | Q61198 |
Pockets
7 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1133 | 0.83 | 0.84 | 81 | empty |
| 2 | 128 | 0.49 | 0.79 | 16 | empty |
| 3 | 86 | 0.42 | 0.79 | 17 | empty |
| 4 | 108 | 0.39 | 0.75 | 22 | empty |
| 5 | 76 | 0.35 | 0.75 | 17 | empty |
Interfaces
6 interfaces between chains.
- A–B · 806 Ų buried · 5 hydrogen bonds · protein-protein
- C–D · 804 Ų buried · 4 hydrogen bonds · protein-protein
- B–C · 324 Ų buried · 0 hydrogen bonds · protein-protein
- A–C · 315 Ų buried · 5 hydrogen bonds · protein-protein
- A–D · 246 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 16 disulfide (disulfide).
Compared structures
- 3C8J · The crystal structure of natural killer cell receptor Ly49C · the same entry in another collection · chain A against A, 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
- Every structure of UniProt Q61198
- Elsewhere: RCSB PDB 3C8J · PDBe 3C8J · UniProt Q61198
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