Biology:IRAK4

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Short description: Protein-coding gene in humans


A representation of the 3D structure of the protein myoglobin showing turquoise α-helices.
Generic protein structure example

IRAK-4 (interleukin-1 receptor-associated kinase 4), in the IRAK family, is a protein kinase involved in signaling innate immune responses from Toll-like receptors. It also supports signaling from T-cell receptors. IRAK4 contains domain structures which are similar to those of IRAK1, IRAK2, IRAKM and Pelle. IRAK4 is unique compared to IRAK1, IRAK2 and IRAKM in that it functions upstream of the other IRAKs, but is more similar to Pelle in this trait. IRAK4 has important clinical applications.

Animals without IRAK-4 are more susceptible to viruses and bacteria but completely resistant to LPS challenge.

History

The first IL-1 receptor-associated kinase (IRAK) was observed in 1994 through experiments with murine T helper cell lines D10N and EL-4.[1] Two years later the first experimental member of this family of kinases, IRAK1, was cloned.[2] In 2002, through database searches at the National Center for Biotechnology Information in an attempt to recognize novel members of the IRAK family, a human cDNA sequence which encoded a peptide sharing significant homology with IRAK1 was identified. This cDNA sequence was found to have five amino acid substitutions compared to IRAK1 and was termed IRAK4.[3]

IRAK4 was proposed to be the mammalian homolog of the Pelle gene found in Drosophila melanogaster and was proposed to require its kinase activity in order for it to function in activating NF-κB. It was also proposed by Li et al. that it might function upstream of other IRAKs and possibly cause a cascade of phosphorylation events through its function as an IRAK1 kinase.[3] This idea of a cascade of phosphorylation events was supported by a study where an IRAK4 knockout in mice showed a more severe phenotype than other IRAK knockout experiments and signalling through Toll/IL-1 receptor (TIR) is virtually eliminated.[3]

In 2007 it was found that IRAK4 activity was necessary for activating signal pathways which lead to mitogen-activated protein kinases (MAPK), or Toll-like receptor-mediated immune responses (TLR), but was not essential to T-cell Receptor (TCR) signalling as was originally proposed.[4]

Protein structure

IRAK4 is a threonine/serine protein kinase made up of 460 amino acids, which contains both a kinase domain and a death domain.[3] Its kinase domain exhibits the typical bilobed structure of kinases, with the N-terminal lobe consisting of a five-stranded antiparallel beta-sheet and one alpha helix. The C-terminal lobe is composed mainly of a number of alpha helices.[5] Also contained within IRAK4's N-terminal is an extension of twenty amino acids, which is unique to IRAK4 among kinases, even within the IRAK family.[6] Situated where the two lobes meet is an ATP binding site, which is covered by a tyrosine gatekeeper. Tyrosine as a gatekeeper is believed to be unique to the IRAK family of kinases.[5] The protein also contains three auto-phosphorylation sites, each of which when mutated results in a decrease in the kinase activity of IRAK4.[7]

A structure of the autophosphorylation of the activation loop has been determined in which the activation loop Thr345 of one monomer is sitting in the active site of another monomer in the crystal (PDB: 4U9A, 4U97).[8][9]

Function, mechanism, signalling pathway

Members of interleukin-1 receptor (Il-1R) and the Toll-like receptor superfamily share an intracytoplasmic Toll-IL-1 receptor (TIR) domain, which mediates recruitment of the interleukin-1 receptor-associated kinase (IRAK) complex via TIR-containing adapter molecules. The TIR-IRAK signaling pathway appears to be crucial for protective immunity against specific bacteria but is redundant against most other microorganisms.[10] IRAK4 is considered the “master IRAK” in the mammalian IRAK family because it is the only component in the IL-1/TLR signalling pathway that is absolutely crucial to its functioning. When one of these pathways is stimulated, the cell is triggered to release proinflammatory signals and to trigger innate immune actions. The loss of IRAK4, or its intrinsic kinase activity, can entirely stop signalling through these pathways.[11]

IRAK4 is involved in signal transduction pathways stimulated by the cellular receptors belonging to the Toll/Interleukin-1 receptor superfamily. The Toll-Like Receptors (TLRs) are stimulated by recognition of pathogen-associated molecular patterns (PAMPS), whereas members of the IL-1R family are stimulated by cytokines.[12] Both play an essential role in the immune response. The ligand binding causes conformational changes to the intracellular domain which allows for the recruitment of scaffolding proteins. One of these proteins, MyD88, uses its death domains to recruit, orient, and activate IRAK4. IRAK2 can then be phosphorylated and joins with IRAK4 and MyD88 to form the myddosome complex, which further phosphorylates and recruits IRAK1.[13] The myddosome complex and IRAK1 recruit and activate TNF receptor-associated factor 6 (TRAF6), a ubiquitin protein ligase.[3] TRAF6 can polyubiquitinate IKK-γ as well as itself, which recruits TGF-β activated kinase 1 (TAK1) in order to activate its ability to phosphorylate IKK-β. These pathways both work to degrade IKKγ, which releases NFκB and free it for translocation into the nucleus. Additionally, TAK1 can activate JNK to induce a MAP kinase pathway which leads to AP-1-induced gene expression.[4] Together, AP-1 and NFκB lead to increased cytokine transcription, adhesion molecule production, and release of second messengers of infection.[13]

Overview of signalling pathway through IRAK4 and the myddosome complex.[13]

Central to all of these signalling pathways is the kinase IRAK4. Results show that IRAK4 is a crucial component in an animal's response to IL-1. Animals deficient in this kinase were found to be lacking in the ability to recognize viral and bacterial invaders, and were completely resistant to lethal doses of lipopolysaccharide (LPS).[12] This is due to IRAK4's function as both a structural protein and as a kinase. Both of these functions are required for the myddosome complex formation. Additionally, IRAK4 has been shown to be absolutely essential in a TLR signalling. IRAK4 deficient mice have a profoundly impaired ability to produce IL-6, TNF-α, and IL-12 in response to TLR ligands. However it is worthy of note that despite its importance to many immune signalling pathways, IRAK4 does not appear to be involved in TCR signalling.[4]

Clinical significance

There are three components of evidence that illustrate IRAK4's involvement in TLR signalling. First, IRAK4 is the initial kinase near the TLR receptor to activate downstream effectors such as cytokines and chemokines in the inflammatory cascade.[3] Second, deletion of the IRAK4 gene results in various cytokine response defects and finally, patients with IRAK4 deficiency have displayed defective immunity in response to IL-1, IL-8 and other TLR binding ligands.[12] Considering IRAK4's downstream position of these signalling events, it is an important drug therapy target for various inflammatory disorders including rheumatoid arthritis, inflammatory bowel disease and other autoimmune diseases.[13]

Prostate cancer

An important area of research currently being explored[by whom?] is the role the IRAK4 gene may play in the development of prostate cancer. There are several interacting factors that lead to the development of this disease however genetic susceptibility of chronic inflammation has been deemed one of the most important. It has been found that mutations in the IRAK4 gene can lead to dysfunctional TLR signalling and ultimately result in increased innate immune responses and therefore an increased inflammatory response. Over time, this can lead to the onset of prostate cancer.[14]

Melanoma

Another interesting application of the IRAK4 gene was found in a study involving human melanoma patients. This research found that patients with melanin-cell tumors displayed an increase in the phosphorylation state of IRAK4. The siRNA inhibition of IRAK4 in mice displayed greater programmed cell death (PCD) and slowed tumor growth.[13]

IRAK4 is higher levels in some lines of melanoma. By reducing IRAK4 activity it may be possible to identify new chemotherapeutic agents to treat patients with advanced melanoma for which no effective treatment is available.[15]

Pancreatic cancer

In a mice model, administering IRAK4 reduced inflammatory signaling, after which T-cells began to attack tumors and immunotherapy became more effective.[16]

Drug target

A common concern with IRAK4 drug therapy or knockdown is if its absence would result in unbearable side effects considering IRAK4 plays an extremely central role in the TLR signalling pathway.[11] Children with IRAK4 deficiency have been found to have decreased immunity to some specific bacterial infections yet not to viral, parasitic or other microbe infections. However, as these children enter adulthood and maternal antibodies are no longer present, susceptibility to infections becomes a rarity. In one study, no significant bacterial infections were documented in all investigated patients over the age of 14 with IRAK4 deficiency. This may mean that in later stages of life, IRAK4 inhibition could provide benefits against certain diseases while maintaining immunity.[17]

The next step in this area of research is the formation of safe IRAK4 inhibitors. There has been modest progress in the development of some potential inhibitors of IRAK4 in which their mechanism works by blocking its tyrosine gated ATP binding site. (As of 2007) All potential drugs are in the early preclinical stages of development.[18]

Early-stage clinical trials of an IRAK4 inhibitor had started by 2019.[19] Moreover, IRAK4 protein degraders have recently entered clinical trials, most notably one from Kymera Therapeutics.[20]

References

  1. ↑ "Interleukin-1-induced activation of a protein kinase co-precipitating with the type I interleukin-1 receptor in T cells". European Journal of Immunology 24 (7): 1566–1571. July 1994. doi:10.1002/eji.1830240717. PMID 8026518. 
  2. ↑ "IRAK: a kinase associated with the interleukin-1 receptor". Science 271 (5252): 1128–1131. February 1996. doi:10.1126/science.271.5252.1128. PMID 8599092. Bibcode: 1996Sci...271.1128C. 
  3. ↑ 3.0 3.1 3.2 3.3 3.4 3.5 "IRAK-4: a novel member of the IRAK family with the properties of an IRAK-kinase". Proceedings of the National Academy of Sciences of the United States of America 99 (8): 5567–5572. April 2002. doi:10.1073/pnas.082100399. PMID 11960013. Bibcode: 2002PNAS...99.5567L. 
  4. ↑ 4.0 4.1 4.2 "Essential role of IRAK-4 protein and its kinase activity in Toll-like receptor-mediated immune responses but not in TCR signaling". The Journal of Experimental Medicine 204 (5): 1013–1024. May 2007. doi:10.1084/jem.20061523. PMID 17485511. 
  5. ↑ 5.0 5.1 "Crystal structures of IRAK-4 kinase in complex with inhibitors: a serine/threonine kinase with tyrosine as a gatekeeper". Structure 14 (12): 1835–1844. December 2006. doi:10.1016/j.str.2006.11.001. PMID 17161373. 
  6. ↑ "Cutting Edge: IL-1 receptor-associated kinase 4 structures reveal novel features and multiple conformations". Journal of Immunology 178 (5): 2641–2645. March 2007. doi:10.4049/jimmunol.178.5.2641. PMID 17312103. 
  7. ↑ "Regulation of IRAK-4 kinase activity via autophosphorylation within its activation loop". Biochemical and Biophysical Research Communications 352 (3): 609–616. January 2007. doi:10.1016/j.bbrc.2006.11.068. PMID 17141195. 
  8. ↑ "IRAK4 dimerization and trans-autophosphorylation are induced by Myddosome assembly". Molecular Cell 55 (6): 891–903. September 2014. doi:10.1016/j.molcel.2014.08.006. PMID 25201411. 
  9. ↑ "Identifying three-dimensional structures of autophosphorylation complexes in crystals of protein kinases". Science Signaling 8 (405): rs13. December 2015. doi:10.1126/scisignal.aaa6711. PMID 26628682. 
  10. ↑ "Inherited disorders of human Toll-like receptor signaling: immunological implications". Immunological Reviews 203: 10–20. February 2005. doi:10.1111/j.0105-2896.2005.00235.x. PMID 15661018. 
  11. ↑ 11.0 11.1 "IRAK-4 inhibitors for inflammation". Current Topics in Medicinal Chemistry 9 (8): 724–737. 2009-01-01. doi:10.2174/156802609789044407. PMID 19689377. 
  12. ↑ 12.0 12.1 12.2 "Severe impairment of interleukin-1 and Toll-like receptor signalling in mice lacking IRAK-4". Nature 416 (6882): 750–756. April 2002. doi:10.1038/nature736. PMID 11923871. Bibcode: 2002Natur.416..750S. 
  13. ↑ 13.0 13.1 13.2 13.3 13.4 "Recent advances in the discovery of small molecule inhibitors of interleukin-1 receptor-associated kinase 4 (IRAK4) as a therapeutic target for inflammation and oncology disorders". Journal of Medicinal Chemistry 58 (1): 96–110. January 2015. doi:10.1021/jm5016044. PMID 25479567. 
  14. ↑ "Interactions of sequence variants in interleukin-1 receptor-associated kinase4 and the toll-like receptor 6-1-10 gene cluster increase prostate cancer risk". Cancer Epidemiology, Biomarkers & Prevention 15 (3): 480–485. March 2006. doi:10.1158/1055-9965.EPI-05-0645. PMID 16537705. 
  15. ↑ "Augmentation of therapeutic responses in melanoma by inhibition of IRAK-1,-4". Cancer Research 72 (23): 6209–6216. December 2012. doi:10.1158/0008-5472.CAN-12-0337. PMID 23041547. 
  16. ↑ "IRAK4 signaling drives resistance to checkpoint immunotherapy in pancreatic ductal adenocarcinoma". Gastroenterology 162 (7): 2047–2062. March 2022. doi:10.1053/j.gastro.2022.02.035. PMID 35271824. 
  17. ↑ "Pyogenic bacterial infections in humans with IRAK-4 deficiency". Science 299 (5615): 2076–2079. March 2003. doi:10.1126/science.1081902. PMID 12637671. Bibcode: 2003Sci...299.2076P. 
  18. ↑ "Selective predisposition to bacterial infections in IRAK-4-deficient children: IRAK-4-dependent TLRs are otherwise redundant in protective immunity". The Journal of Experimental Medicine 204 (10): 2407–2422. October 2007. doi:10.1084/jem.20070628. PMID 17893200. 
  19. ↑ Curis, Inc. (2019). "Curis Provides First-Ever Demonstration that Targeting IRAK4 in Patients with Relapsed/Refractory Non-Hodgkin's Lymphoma Results in Anti-Cancer Activity in Ongoing Phase 1 Study". PR Newswire Association LLC. https://www.prnewswire.com/news-releases/curis-provides-first-ever-demonstration-that-targeting-irak4-in-patients-with-relapsedrefractory-non-hodgkins-lymphoma-results-in-anti-cancer-activity-in-ongoing-phase-1-study-300970605.html. 
  20. ↑ "IRAK4 degrader to take on innate immunity". Nature Biotechnology 38 (11): 1221–1223. November 2020. doi:10.1038/s41587-020-0724-8. PMID 33144727. 

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