MolNFT v1 · #82027 · protein
Crystal structure of human interleukin-5 in complex with its alpha receptor
3VA2: “Crystal structure of human interleukin-5 in complex with its alpha receptor”. X-ray diffraction, 4 pockets (best druggability 0.75). MolNFT v1 #82027 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 3VA2
- Type
- protein
- Length
- 523 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Interleukin-5; Interleukin-5 receptor subunit alpha
- UniProt
- P05113, Q01344
- Pockets
- 4 · best druggability 0.75
Structure
x-ray diffraction · 3 distinct chains · 27% helix, 33% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Interleukin-5 | protein | 107 | 66% helix, 6% strand | P05113 |
| B | Interleukin-5 | protein | 109 | 59% helix, 5% strand | P05113 |
| C | Interleukin-5 receptor subunit alpha | protein | 307 | 2% helix, 52% strand | Q01344 |
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 751 | 0.75 | 0.80 | 60 | empty |
| 2 | 420 | 0.70 | 0.81 | 45 | empty |
| 3 | 95 | 0.66 | 0.91 | 20 | empty |
| 4 | 107 | 0.43 | 0.78 | 19 | empty |
Interfaces
3 interfaces between chains.
- A–B · 3428 Ų buried · 23 hydrogen bonds · protein-protein
- A–C · 879 Ų buried · 22 hydrogen bonds · protein-protein
- B–C · 479 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 5 disulfide (disulfide).
Compared structures
- 3VA2 · Crystal structure of human Interleukin-5 in complex with its alpha receptor · the same entry in another collection · chain A against A, TM-score 1.00
- Q01344 · AlphaFold monomer V2.0 prediction for interleukin-5 receptor subunit alpha (Q01344) · a predicted model of the same protein · chain C against A, TM-score 0.99
- P05113 · AlphaFold monomer V2.0 prediction for interleukin-5 (P05113) · a predicted model of the same protein · chain B against A, TM-score 0.97
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 P05113
- Every structure of UniProt Q01344
- Elsewhere: RCSB PDB 3VA2 · PDBe 3VA2 · UniProt P05113 · UniProt Q01344
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