Research workbench
Structure of the 2C/LD/QL9 allogeneic complex
Analyse Structure of the 2C/LD/QL9 allogeneic complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2OI9
- Type
- protein
- Length
- 405 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Major histocompatibility complex protein; T cell receptor alpha chain; T cell receptor…
- UniProt
- P01897, P01738, A2NTY6
- Pockets
- 6 · best druggability 0.64
Structure
x-ray diffraction · 4 distinct chains · 20% helix, 43% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Major histocompatibility complex protein | protein | 175 | 38% helix, 34% strand | P01897 |
| B | T cell receptor alpha chain | protein | 110 | 8% helix, 51% strand | P01738 |
| C | T cell receptor beta chain | protein | 111 | 3% helix, 52% strand | A2NTY6 |
| Q | Peptide (GLN)(LEU)(SER)(PRO)(PHE)(PRO)(PHE)(ASP) (leu) | protein | 9 | 0% helix, 0% strand | — |
Pockets
6 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 288 | 0.64 | 0.81 | 40 | empty |
| 2 | 73 | 0.40 | 0.79 | 18 | empty |
| 3 | 76 | 0.37 | 0.77 | 15 | empty |
| 4 | 78 | 0.34 | 0.76 | 18 | empty |
| 5 | 67 | 0.32 | 0.75 | 16 | empty |
Interfaces
6 interfaces between chains.
- A–Q · 922 Ų buried · 10 hydrogen bonds · protein-protein
- B–C · 813 Ų buried · 9 hydrogen bonds · protein-protein
- A–B · 453 Ų buried · 5 hydrogen bonds · protein-protein
- A–C · 312 Ų buried · 1 hydrogen bond · protein-protein
- C–Q · 219 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 2OI9 · Structure of the 2C/Ld/QL9 allogeneic complex · the same entry in another collection · chain A against A, TM-score 1.00
- P01897 · AlphaFold monomer V2.0 prediction for H-2 class I histocompatibility antigen, L-D alpha… · a predicted model of the same protein · chain A against A, TM-score 0.98
- P01738 · AlphaFold monomer V2.0 prediction for T-cell receptor alpha chain V region PHDS58 (P01738) · a predicted model of the same protein · chain B against A, TM-score 0.96
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 P01897
- Every structure of UniProt P01738
- Every structure of UniProt A2NTY6
- Elsewhere: RCSB PDB 2OI9 · PDBe 2OI9 · UniProt P01897 · UniProt P01738 · UniProt A2NTY6
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