MolNFT v1 · #134498 · protein
Structure of an affinity matured lambda-IFN/IFN-LAMBDAR1/IL-10RBETA receptor complex
5T5W · Interleukin-10 receptor subunit beta: “Structure of an affinity matured lambda-IFN/IFN-LAMBDAR1/IL-10RBETA receptor complex”. X-ray diffraction, 1 ligand (NAG), 4 pockets (best druggability 0.71). MolNFT v1 #134498 on GenesisL1: 3D…
- PDB
- 5T5W
- Type
- protein
- Length
- 537 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Interleukin-10 receptor subunit beta; Interferon lambda receptor 1; Interferon lambda-3
- UniProt
- Q08334, Q8IU57, Q8IZI9
- Ligands
- NAG
- Pockets
- 4 · best druggability 0.71
Structure
x-ray diffraction · 3 distinct chains · 21% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Interleukin-10 receptor subunit beta | protein | 198 | 4% helix, 47% strand | Q08334 |
| B | Interferon lambda receptor 1 | protein | 188 | 2% helix, 48% strand | Q8IU57 |
| C | Interferon lambda-3 | protein | 151 | 68% helix, 0% strand | Q8IZI9 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 3 copies · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 751 | 0.71 | 0.77 | 92 | empty |
| 2 | 89 | 0.42 | 0.79 | 23 | empty |
| 3 | 85 | 0.42 | 0.79 | 18 | empty |
| 4 | 65 | 0.33 | 0.75 | 16 | empty |
Interfaces
3 interfaces between chains.
- A–C · 855 Ų buried · 15 hydrogen bonds · protein-protein
- A–B · 852 Ų buried · 9 hydrogen bonds · protein-protein
- B–C · 651 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide, 3 glycan (disulfide, N-glycosylation).
Compared structures
- 5T5W · Structure of an affinity matured lambda-IFN/IFN-lambdaR1/IL-10Rbeta receptor complex · the same entry in another collection · chain A against A, TM-score 1.00
- Q8IZI9 · AlphaFold monomer V2.0 prediction for interferon lambda-3 (Q8IZI9) · a predicted model of the same protein · chain C against A, TM-score 0.97
- Q8IU57 · AlphaFold monomer V2.0 prediction for interferon lambda receptor 1 (Q8IU57) · a predicted model of the same protein · chain B against A, TM-score 0.96
- Q08334 · AlphaFold monomer V2.0 prediction for interleukin-10 receptor subunit beta (Q08334) · a predicted model of the same protein · chain A 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 Q08334
- Every structure of UniProt Q8IU57
- Every structure of UniProt Q8IZI9
- Elsewhere: RCSB PDB 5T5W · PDBe 5T5W · UniProt Q08334 · UniProt Q8IU57 · UniProt Q8IZI9
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