MolNFT v1 · #189005 · protein
Structure of the homodimeric il-25-il-17RB binary complex
7UWJ · Interleukin-25: “Structure of the homodimeric il-25-il-17RB binary complex”. Electron microscopy, 1 ligand (NAG), 13 pockets (best druggability 0.78). MolNFT v1 #189005 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7UWJ
- Type
- protein
- Length
- 664 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Interleukin-25; Interleukin-17 receptor B
- UniProt
- Q9H293, Q9NRM6
- Ligands
- NAG
- Pockets
- 13 · best druggability 0.78
Structure
electron microscopy · 2 distinct chains · 3% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Interleukin-25 | protein | 94 | 0% helix, 51% strand | Q9H293 |
| C, D | Interleukin-17 receptor B | protein | 238 | 4% helix, 39% strand | Q9NRM6 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 6 copies · chains C, A, D, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
13 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 128 | 0.78 | 0.96 | 38 | empty |
| 2 | 712 | 0.76 | 0.81 | 71 | empty |
| 3 | 96 | 0.72 | 0.94 | 24 | empty |
| 4 | 286 | 0.61 | 0.79 | 32 | empty |
| 5 | 300 | 0.60 | 0.78 | 35 | empty |
Interfaces
5 interfaces between chains.
- A–B · 1366 Ų buried · 15 hydrogen bonds · protein-protein
- B–D · 1318 Ų buried · 7 hydrogen bonds · protein-protein
- A–C · 1230 Ų buried · 9 hydrogen bonds · protein-protein
- C–B · 1032 Ų buried · 9 hydrogen bonds · protein-protein
- A–D · 957 Ų buried · 11 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 16 disulfide, 6 glycan (disulfide, N-glycosylation).
Compared structures
- 7UWJ · Structure of the homodimeric IL-25-IL-17RB binary complex · the same entry in another collection · chain D against D, TM-score 1.00
- Q9H293 · AlphaFold monomer V2.0 prediction for interleukin-25 (Q9H293) · a predicted model of the same protein · chain A against A, TM-score 0.88
- Q9NRM6 · AlphaFold monomer V2.0 prediction for interleukin-17 receptor B (Q9NRM6) · a predicted model of the same protein · chain C against A, TM-score 0.79
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 Q9H293
- Every structure of UniProt Q9NRM6
- Elsewhere: RCSB PDB 7UWJ · PDBe 7UWJ · UniProt Q9H293 · UniProt Q9NRM6
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