Research workbench
Crystal structure of a H5-specific ctl epitope derived from H5N1 influenza virus in complex with HLA-A*0201
Analyse Crystal structure of a H5-specific ctl epitope derived from H5N1 influenza… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3MGO
- Type
- protein
- Length
- 1,540 residues
- Chains
- 12
- 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; 10-meric…
- UniProt
- P01892, P61769
- Pockets
- 20 · best druggability 0.77
Structure
x-ray diffraction · 3 distinct chains · 19% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D, G, J | HLA class I histocompatibility antigen, a-2 alpha chain | protein | 275 | 27% helix, 40% strand | P01892 |
| B, E, H, K | Beta-2-microglobulin | protein | 100 | 0% helix, 49% strand | P61769 |
| C, F, I, L | 10-meric peptide from hemagglutinin | protein | 10 | 0% helix, 0% strand | — |
Pockets
20 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 805 | 0.77 | 0.81 | 85 | empty |
| 2 | 991 | 0.76 | 0.78 | 77 | empty |
| 3 | 744 | 0.70 | 0.77 | 68 | empty |
| 4 | 753 | 0.70 | 0.77 | 67 | empty |
| 5 | 235 | 0.51 | 0.76 | 29 | empty |
Interfaces
14 interfaces between chains.
- G–H · 1423 Ų buried · 24 hydrogen bonds · protein-protein
- D–E · 1416 Ų buried · 23 hydrogen bonds · protein-protein
- A–B · 1409 Ų buried · 20 hydrogen bonds · protein-protein
- J–K · 1402 Ų buried · 23 hydrogen bonds · protein-protein
- J–L · 978 Ų buried · 12 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 12 disulfide (disulfide).
Compared structures
- 3MGO · Crystal structure of a H5-specific CTL epitope derived from H5N1 influenza virus in… · the same entry in another collection · chain L against L, 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 P61769
- Elsewhere: RCSB PDB 3MGO · PDBe 3MGO · UniProt P01892 · UniProt P61769
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.