Research workbench
Crystal structure of a complex between the human adenovirus type 2 E3- 19K protein and MHC class I molecule HLA-A2/TAX
Analyse Crystal structure of a complex between the human adenovirus type 2 E3- 19K… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4E5X
- Type
- protein
- Length
- 964 residues
- Chains
- 8
- 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; Protein…
- UniProt
- P01892, P61769, P0C213, P68979
- Pockets
- 12 · best druggability 0.74
Structure
x-ray diffraction · 5 distinct chains · 17% helix, 44% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D | HLA class I histocompatibility antigen, a-2 alpha chain | protein | 275 | 27% helix, 40% strand | P01892 |
| B, E | Beta-2-microglobulin | protein | 100 | 0% helix, 49% strand | P61769 |
| C, F | Protein tax-1 | protein | 9 | 0% helix, 0% strand | P0C213 |
| G | Early E3 18.5 kda glycoprotein | protein | 99 | 13% helix, 49% strand | P68979 |
| H | Early E3 18.5 kda glycoprotein | protein | 97 | 13% helix, 51% strand | P68979 |
Pockets
12 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 817 | 0.74 | 0.79 | 71 | empty |
| 2 | 621 | 0.71 | 0.79 | 63 | empty |
| 3 | 711 | 0.71 | 0.78 | 78 | empty |
| 4 | 271 | 0.69 | 0.85 | 38 | empty |
| 5 | 136 | 0.57 | 0.83 | 26 | empty |
Interfaces
11 interfaces between chains.
- D–E · 1392 Ų buried · 24 hydrogen bonds · protein-protein
- A–B · 1353 Ų buried · 20 hydrogen bonds · protein-protein
- D–F · 912 Ų buried · 14 hydrogen bonds · protein-protein
- A–C · 877 Ų buried · 14 hydrogen bonds · protein-protein
- A–G · 716 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 10 disulfide (disulfide).
Compared structures
- 4E5X · Crystal structure of a complex between the human adenovirus type 2 E3-19K protein and MHC… · the same entry in another collection · chain H against H, TM-score 1.00
- P61769 · AlphaFold monomer V2.0 prediction for beta-2-microglobulin (P61769) · a predicted model of the same protein · chain E 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
- Every structure of UniProt P0C213
- Every structure of UniProt P68979
- Elsewhere: RCSB PDB 4E5X · PDBe 4E5X · UniProt P01892 · UniProt P61769 · UniProt P0C213 · UniProt P68979
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