Research workbench
HLA-B*57:03 presenting lsspvtksw
Analyse HLA-B*57:03 presenting lsspvtksw in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5VVP
- 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; Leu-ser-ser-pro-val-thr-lys-ser-TRP
- UniProt
- I3ZN84, P61769
- Pockets
- 5 · best druggability 0.69
Structure
x-ray diffraction · 3 distinct chains · 19% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | MHC class I antigen | protein | 276 | 26% helix, 39% strand | I3ZN84 |
| B | Beta-2-microglobulin | protein | 97 | 0% helix, 51% strand | P61769 |
| C | Leu-ser-ser-pro-val-thr-lys-ser-TRP | protein | 9 | 0% helix, 0% strand | — |
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 647 | 0.69 | 0.78 | 61 | empty |
| 2 | 113 | 0.46 | 0.79 | 22 | empty |
| 3 | 127 | 0.44 | 0.77 | 24 | empty |
| 4 | 53 | 0.34 | 0.78 | 15 | empty |
| 5 | 54 | 0.27 | 0.74 | 13 | empty |
Interfaces
2 interfaces between chains.
- A–B · 1212 Ų buried · 19 hydrogen bonds · protein-protein
- A–C · 876 Ų buried · 18 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
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 I3ZN84
- Every structure of UniProt P61769
- Elsewhere: RCSB PDB 5VVP · PDBe 5VVP · UniProt I3ZN84 · UniProt P61769
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