Research workbench
Structural basis for recognition of mutant self by a tumor- specific, MHC class II-restricted TCR
Analyse Structural basis for recognition of mutant self by a tumor- specific, MHC class… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2IAL
- Type
- protein
- Length
- 869 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- CD4+ T cell receptor E8 alpha chain; CD4+ T cell receptor E8 beta chain
- UniProt
- P01848, P01850
- Pockets
- 7 · best druggability 0.83
Structure
x-ray diffraction · 3 distinct chains · 6% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | CD4+ T cell receptor E8 alpha chain | protein | 196 | 5% helix, 49% strand | P01848 |
| B, D | CD4+ T cell receptor E8 beta chain | protein | 239 | 7% helix, 51% strand | P01850 |
| C | CD4+ T cell receptor E8 alpha chain | protein | 195 | 5% helix, 50% strand | P01848 |
Pockets
7 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 793 | 0.83 | 0.86 | 98 | empty |
| 2 | 347 | 0.74 | 0.85 | 47 | empty |
| 3 | 239 | 0.51 | 0.75 | 25 | empty |
| 4 | 56 | 0.50 | 0.86 | 17 | empty |
| 5 | 116 | 0.41 | 0.75 | 19 | empty |
Interfaces
6 interfaces between chains.
- A–B · 2233 Ų buried · 25 hydrogen bonds · protein-protein
- C–D · 2225 Ų buried · 22 hydrogen bonds · protein-protein
- A–C · 313 Ų buried · 2 hydrogen bonds · protein-protein
- B–D · 290 Ų buried · 3 hydrogen bonds · protein-protein
- A–D · 217 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 10 disulfide (disulfide).
Compared structures
- 2IAL · Structural basis for recognition of mutant self by a tumor-specific, MHC class… · the same entry in another collection · chain C against C, TM-score 1.00
- P01850 · AlphaFold monomer V2.0 prediction for T cell receptor beta constant 1 (P01850) · a predicted model of the same protein · chain B against A, TM-score 0.54
- P01848 · AlphaFold monomer V2.0 prediction for T cell receptor alpha chain constant (P01848) · a predicted model of the same protein · chain A against A, TM-score 0.44
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 P01848
- Every structure of UniProt P01850
- Elsewhere: RCSB PDB 2IAL · PDBe 2IAL · UniProt P01848 · UniProt P01850
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