MolNFT v1 · #64088 · protein
Crystal structure of the minor histocompatibility peptide ha-1ARG in complex with HLA-A2
3FT4 · HLA class I histocompatibility antigen, a-2 alpha chain: “Crystal structure of the minor histocompatibility peptide ha-1ARG in complex with HLA-A2”. X-ray diffraction, 5 pockets (best druggability 0.66). MolNFT v1 #64088 on…
- PDB
- 3FT4
- Type
- protein
- Length
- 384 residues
- Chains
- 3
- 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; Arginine…
- UniProt
- P01892, P61769
- Pockets
- 5 · best druggability 0.66
Structure
x-ray diffraction · 3 distinct chains · 19% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | HLA class I histocompatibility antigen, a-2 alpha chain | protein | 275 | 27% helix, 40% strand | P01892 |
| B | Beta-2-microglobulin | protein | 100 | 0% helix, 49% strand | P61769 |
| P | Arginine variant ha-1 peptide | protein | 9 | 0% helix, 0% strand | — |
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 549 | 0.66 | 0.77 | 52 | empty |
| 2 | 104 | 0.45 | 0.79 | 21 | empty |
| 3 | 51 | 0.39 | 0.81 | 16 | empty |
| 4 | 63 | 0.32 | 0.75 | 15 | empty |
| 5 | 61 | 0.31 | 0.75 | 15 | empty |
Interfaces
2 interfaces between chains.
- A–B · 1408 Ų buried · 22 hydrogen bonds · protein-protein
- A–P · 895 Ų buried · 13 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 3FT4 · Crystal Structure of the minor histocompatibility peptide HA-1Arg in complex with HLA-A2 · the same entry in another collection · chain A against A, TM-score 1.00
- P61769 · AlphaFold monomer V2.0 prediction for beta-2-microglobulin (P61769) · a predicted model of the same protein · chain B against A, TM-score 0.99
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
- Elsewhere: RCSB PDB 3FT4 · PDBe 3FT4 · UniProt P01892 · UniProt P61769
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