Research workbench
Diversity in the type II natural killer T cell receptor repertoire and antigen specificity leads to differing CD1D docking strategies
Analyse Diversity in the type II natural killer T cell receptor repertoire and antigen… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6MRA
- Type
- protein
- Length
- 420 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- TCR alpha chain; TCR beta-chain
- Pockets
- 3 · best druggability 0.72
Structure
x-ray diffraction · 2 distinct chains · 6% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | TCR alpha chain | protein | 179 | 3% helix, 54% strand | — |
| B | TCR beta-chain | protein | 241 | 7% helix, 48% strand | — |
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1057 | 0.72 | 0.76 | 75 | empty |
| 2 | 70 | 0.36 | 0.77 | 18 | empty |
| 3 | 54 | 0.29 | 0.75 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 2003 Ų buried · 21 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 5 disulfide (disulfide).
Compared structures
- 6MRA · Diversity in the type II Natural Killer T cell receptor repertoire and antigen… · 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
- Elsewhere: RCSB PDB 6MRA · PDBe 6MRA
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