Research workbench
Crystal structure of class I MHC A2 in complex with peptide P1058
Analyse Crystal structure of class I MHC A2 in complex with peptide P1058 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1I7R
- Type
- protein
- Length
- 768 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- HLA class I histocompatibility antigen, a-2 alpha chain; Beta-2-microglobulin; 9 residue…
- UniProt
- P01892, P01884
- Pockets
- 9 · best druggability 0.69
Structure
x-ray diffraction · 3 distinct chains · 20% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D | HLA class I histocompatibility antigen, a-2 alpha chain | protein | 275 | 28% helix, 39% strand | P01892 |
| B, E | Beta-2-microglobulin | protein | 100 | 0% helix, 49% strand | P01884 |
| C, F | 9 residue peptide | protein | 9 | 0% helix, 0% strand | — |
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 | 646 | 0.69 | 0.77 | 59 | empty |
| 2 | 606 | 0.68 | 0.77 | 56 | empty |
| 3 | 194 | 0.49 | 0.76 | 34 | empty |
| 4 | 146 | 0.47 | 0.78 | 22 | empty |
| 5 | 59 | 0.44 | 0.83 | 15 | empty |
Interfaces
4 interfaces between chains.
- D–E · 1395 Ų buried · 21 hydrogen bonds · protein-protein
- A–B · 1395 Ų buried · 22 hydrogen bonds · protein-protein
- A–C · 900 Ų buried · 11 hydrogen bonds · protein-protein
- D–F · 899 Ų buried · 11 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide (disulfide).
Compared structures
- 1I7R · Crystal structure of class I MHC A2 in complex with peptide P1058 · 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 P01892
- Every structure of UniProt P01884
- Elsewhere: RCSB PDB 1I7R · PDBe 1I7R · UniProt P01892 · UniProt P01884
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