MolNFT v1 · #190163 · protein
A COVID-19 T-cell response detection method based on a newly identified human CD8+ T cell epitope from SARS-cov-2-hubei province, 2021.
7WKJ · MHC class I antigen: “A COVID-19 T-cell response detection method based on a newly identified human CD8+ T cell epitope from…”. X-ray diffraction, 3 pockets (best druggability 0.69). MolNFT v1 #190163 on GenesisL1: 3D structure…
- PDB
- 7WKJ
- Type
- protein
- Length
- 382 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- MHC class I antigen; Beta-2-microglobulin; Lys-thr-phe-pro-pro-thr-glu-pro-lys
- UniProt
- A0A6M6CC39, P61769
- Pockets
- 3 · best druggability 0.69
Structure
x-ray diffraction · 3 distinct chains · 18% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | MHC class I antigen | protein | 274 | 26% helix, 40% strand | A0A6M6CC39 |
| B | Beta-2-microglobulin | protein | 99 | 0% helix, 49% strand | P61769 |
| C | Lys-thr-phe-pro-pro-thr-glu-pro-lys | protein | 9 | 0% helix, 0% strand | — |
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 668 | 0.69 | 0.77 | 58 | empty |
| 2 | 116 | 0.43 | 0.77 | 16 | empty |
| 3 | 61 | 0.33 | 0.77 | 16 | empty |
Interfaces
2 interfaces between chains.
- A–B · 1327 Ų buried · 30 hydrogen bonds · protein-protein
- A–C · 914 Ų buried · 18 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 7WKJ · A COVID-19 T-cell response detection method based on a newly identified human CD8+ T cell… · 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 A0A6M6CC39
- Every structure of UniProt P61769
- Elsewhere: RCSB PDB 7WKJ · PDBe 7WKJ · UniProt A0A6M6CC39 · UniProt P61769
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