MolNFT v1 · #162658 · protein
IRAK4 in complex with inhibitor
6RFJ · Interleukin-1 receptor-associated kinase 4: “IRAK4 in complex with inhibitor”. X-ray diffraction, 2 ligands (K1E, SO4), 4 pockets (best druggability 0.73). MolNFT v1 #162658 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 6RFJ
- Type
- protein
- Length
- 547 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Interleukin-1 receptor-associated kinase 4
- EC
- 2.7.11.1
- UniProt
- Q9NWZ3
- Ligands
- K1E, SO4
- Pockets
- 4 · best druggability 0.73
Structure
x-ray diffraction · 2 distinct chains · 41% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Interleukin-1 receptor-associated kinase 4 (EC 2.7.11.1) | protein | 268 | 42% helix, 15% strand | Q9NWZ3 |
| B | Interleukin-1 receptor-associated kinase 4 (EC 2.7.11.1) | protein | 279 | 41% helix, 16% strand | Q9NWZ3 |
Ligands and binding sites
- K1E · methyl 4-[4-[[6-(cyanomethyl)-2-[(1-methylpyrazol-4-yl)amino]pyrido[3,2-d]pyrimidin-4-yl]amino]cyclohexyl]piperazine-1-carboxylate · ligand · 2 copies · chains A, B
- SO4 · Sulfate ion · ion · 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, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 762 | 0.73 | 0.78 | 51 | empty |
| 2 | 410 | 0.68 | 0.80 | 57 | K1E |
| 3 | 286 | 0.67 | 0.83 | 38 | K1E |
| 4 | 61 | 0.28 | 0.74 | 12 | empty |
Interfaces
1 interface between chains.
- A–B · 636 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 modified (phosphorylation).
Compared structures
- 6RFJ · IRAK4 IN COMPLEX WITH inhibitor · the same entry in another collection · chain A against A, TM-score 1.00
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 Q9NWZ3
- Elsewhere: RCSB PDB 6RFJ · PDBe 6RFJ · UniProt Q9NWZ3
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