MolNFT v1 · #189007 · protein

Structure of the il-25-il-17RB-il-17RA ternary complex

7UWL · Interleukin-25: “Structure of the il-25-il-17RB-il-17RA ternary complex”. Electron microscopy, 1 ligand (NAG), 20 pockets (best druggability 0.79). MolNFT v1 #189007 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7UWL
Type: protein
Length: 1,236 residues
Chains: 6
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Interleukin-25; Interleukin-17 receptor B; Interleukin-17 receptor a
UniProt: Q9H293, Q9NRM6, Q96F46
Ligands: NAG
Pockets: 20 · best druggability 0.79

Structure

electron microscopy · 4 distinct chains · 5% helix, 39% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Interleukin-25	protein	96	3% helix, 46% strand	Q9H293
C	Interleukin-17 receptor B	protein	250	5% helix, 41% strand	Q9NRM6
D	Interleukin-17 receptor B	protein	252	5% helix, 39% strand	Q9NRM6
E, F	Interleukin-17 receptor a	protein	271	6% helix, 34% strand	Q96F46

Ligands and binding sites

NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 22 copies · chains C, D, A, B, E, F

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

20 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	887	0.79	0.81	89	NAG
2	194	0.76	0.91	32	empty
3	184	0.76	0.92	31	empty
4	85	0.73	0.95	25	empty
5	52	0.69	0.96	18	empty

Interfaces

7 interfaces between chains.

A–B · 1289 Å² buried · 13 hydrogen bonds · protein-protein
A–C · 1052 Å² buried · 6 hydrogen bonds · protein-protein
B–D · 1034 Å² buried · 4 hydrogen bonds · protein-protein
B–C · 991 Å² buried · 14 hydrogen bonds · protein-protein
A–D · 986 Å² buried · 14 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 26 disulfide, 18 glycan (disulfide, N-glycosylation).

Compared structures

7UWL · Structure of the IL-25-IL-17RB-IL-17RA ternary complex · the same entry in another collection · chain F against F, TM-score 1.00
Q96F46 · AlphaFold monomer V2.0 prediction for interleukin-17 receptor a (Q96F46) · a predicted model of the same protein · chain F against A, TM-score 0.93
Q9H293 · AlphaFold monomer V2.0 prediction for interleukin-25 (Q9H293) · a predicted model of the same protein · chain B 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
Every structure of UniProt Q96F46
Elsewhere: RCSB PDB 7UWL · PDBe 7UWL · UniProt Q9H293 · UniProt Q9NRM6 · UniProt Q96F46

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