Research workbench
Crystal structure of the human cytomegalovirus protein US2 bound to the MHC class I molecule HLA-A2/TAX
Analyse Crystal structure of the human cytomegalovirus protein US2 bound to the MHC… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1IM3
- Type
- protein
- Length
- 1,916 residues
- Chains
- 16
- 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; Human…
- UniProt
- P01892, P61769, P09713
- Pockets
- 20 · best druggability 0.71
Structure
x-ray diffraction · 4 distinct chains · 16% helix, 46% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, E, I, M | HLA class I histocompatibility antigen, a-2 alpha chain | protein | 275 | 27% helix, 40% strand | P01892 |
| B, F, J, N | Beta-2-microglobulin | protein | 100 | 0% helix, 49% strand | P61769 |
| C, G, K, O | Human T-cell lymphotropic virus type 1 tax peptide | protein | 9 | 0% helix, 0% strand | — |
| D, H, L, P | Cytomegalovirus protein US2 | protein | 95 | 3% helix, 63% strand | P09713 |
Pockets
20 pockets found on a 1 Å grid, 14 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 692 | 0.71 | 0.78 | 65 | empty |
| 2 | 699 | 0.70 | 0.78 | 70 | empty |
| 3 | 721 | 0.70 | 0.77 | 68 | empty |
| 4 | 692 | 0.70 | 0.77 | 69 | empty |
| 5 | 226 | 0.64 | 0.83 | 36 | empty |
Interfaces
23 interfaces between chains.
- I–J · 1438 Ų buried · 22 hydrogen bonds · protein-protein
- E–F · 1435 Ų buried · 22 hydrogen bonds · protein-protein
- M–N · 1433 Ų buried · 23 hydrogen bonds · protein-protein
- A–B · 1425 Ų buried · 22 hydrogen bonds · protein-protein
- I–K · 857 Ų buried · 11 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 16 disulfide (disulfide).
Compared structures
- 1IM3 · Crystal Structure of the human cytomegalovirus protein US2 bound to the MHC class I… · the same entry in another collection · chain P against P, 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
- Every structure of UniProt P09713
- Elsewhere: RCSB PDB 1IM3 · PDBe 1IM3 · UniProt P01892 · UniProt P61769 · UniProt P09713
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.