Research workbench
Crystal structure of 8-mer peptide from avian influenza H5N1 virus in complex with BF2*1501
Analyse Crystal structure of 8-mer peptide from avian influenza H5N1 virus in complex… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6IRL
- Type
- protein
- Length
- 379 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- MHC class I molecule; Beta-2-microglobulin; Arg-arg-glu-val-his-thr-tyr-tyr
- UniProt
- Q9GIP6, P21611, Q809J3
- Pockets
- 2 · best druggability 0.71
Structure
x-ray diffraction · 3 distinct chains · 19% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | MHC class I molecule | protein | 272 | 26% helix, 41% strand | Q9GIP6 |
| B | Beta-2-microglobulin | protein | 99 | 0% helix, 49% strand | P21611 |
| C | Arg-arg-glu-val-his-thr-tyr-tyr | protein | 8 | 0% helix, 0% strand | Q809J3 |
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 579 | 0.71 | 0.79 | 58 | empty |
| 2 | 96 | 0.41 | 0.77 | 17 | empty |
Interfaces
2 interfaces between chains.
- A–B · 1594 Ų buried · 24 hydrogen bonds · protein-protein
- A–C · 1045 Ų buried · 26 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 6IRL · Crystal structure of 8-mer peptide from avian influenza H5N1 virus in complex with… · the same entry in another collection · chain A against A, TM-score 1.00
- P21611 · AlphaFold monomer V2.0 prediction for beta-2-microglobulin (P21611) · a predicted model of the same protein · chain B against A, TM-score 0.96
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 Q9GIP6
- Every structure of UniProt P21611
- Every structure of UniProt Q809J3
- Elsewhere: RCSB PDB 6IRL · PDBe 6IRL · UniProt Q9GIP6 · UniProt P21611 · UniProt Q809J3
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