Research workbench
The antigenic identity of PEPTIDE(SLASH)MHC complexes: a comparison of the conformation of five peptides presented by HLA-A2
Analyse The antigenic identity of PEPTIDE(SLASH)MHC complexes: a comparison of the… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1HHK
- Type
- protein
- Length
- 768 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Class I histocompatibility antigen (HLA-A*0201) (alpha chain); Beta 2-microglobulin…
- UniProt
- P01892, P61769, P14079
- Pockets
- 9 · best druggability 0.69
Structure
x-ray diffraction · 3 distinct chains · 19% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D | Class I histocompatibility antigen (HLA-A*0201) (alpha chain) | protein | 275 | 27% helix, 40% strand | P01892 |
| B, E | Beta 2-microglobulin | protein | 100 | 0% helix, 49% strand | P61769 |
| C, F | Nonameric peptide from HTLV-1 tax protein (residues 11-19) | protein | 9 | 0% helix, 0% strand | P14079 |
Pockets
9 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 711 | 0.69 | 0.77 | 65 | empty |
| 2 | 585 | 0.68 | 0.77 | 52 | empty |
| 3 | 154 | 0.46 | 0.76 | 24 | empty |
| 4 | 50 | 0.44 | 0.84 | 16 | empty |
| 5 | 137 | 0.42 | 0.75 | 21 | empty |
Interfaces
5 interfaces between chains.
- D–E · 1442 Ų buried · 27 hydrogen bonds · protein-protein
- A–B · 1414 Ų buried · 25 hydrogen bonds · protein-protein
- D–F · 861 Ų buried · 13 hydrogen bonds · protein-protein
- A–C · 859 Ų buried · 12 hydrogen bonds · protein-protein
- A–D · 13 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide (disulfide).
Compared structures
- 1HHK · The antigenic identity of PEPTIDE(SLASH)MHC complexes: a comparison of the conformation… · the same entry in another collection · chain F against F, TM-score 1.00
- P61769 · AlphaFold monomer V2.0 prediction for beta-2-microglobulin (P61769) · a predicted model of the same protein · chain E against A, TM-score 0.98
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 P01892
- Every structure of UniProt P61769
- Every structure of UniProt P14079
- Elsewhere: RCSB PDB 1HHK · PDBe 1HHK · UniProt P01892 · UniProt P61769 · UniProt P14079
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