MolNFT v1 · #139847 · protein
Crystal structure of HLA class I antigen
5XS3 · Heavy chain: “Crystal structure of HLA class I antigen”. X-ray diffraction, 4 pockets (best druggability 0.67). MolNFT v1 #139847 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5XS3
- Type
- protein
- Length
- 378 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Heavy chain; Light chain; P
- Pockets
- 4 · best druggability 0.67
Structure
x-ray diffraction · 3 distinct chains · 19% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Heavy chain | protein | 271 | 27% helix, 41% strand | — |
| B | Light chain | protein | 98 | 0% helix, 50% strand | — |
| C | P | protein | 9 | 0% helix, 0% strand | — |
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 547 | 0.67 | 0.77 | 50 | empty |
| 2 | 165 | 0.44 | 0.75 | 34 | empty |
| 3 | 81 | 0.35 | 0.75 | 18 | empty |
| 4 | 66 | 0.29 | 0.74 | 14 | empty |
Interfaces
2 interfaces between chains.
- A–B · 1253 Ų buried · 18 hydrogen bonds · protein-protein
- A–C · 959 Ų buried · 28 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 5XS3 · Crystal structure of HLA Class I antigen · 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
- Elsewhere: RCSB PDB 5XS3 · PDBe 5XS3
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