Biology:Non-catalytic tyrosine-phosphorylated receptors

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Non-catalytic tyrosine-phosphorylated receptors (NTRs), also called immunoreceptors or Src-family kinase-dependent receptors, are a group of cell surface receptors expressed by leukocytes that are important for cell migration and the recognition of abnormal cells or structures and the initiation of an immune response.[1][2] These transmembrane receptors are not grouped into the NTR family based on sequence homology, but because they share a conserved signalling pathway utilizing the same signalling motifs.[1] A signaling cascade is initiated when the receptors bind their respective ligand resulting in cell activation. For that tyrosine residues in the cytoplasmic tail of the receptors have to be phosphorylated, hence the receptors are referred to as tyrosine-phosphorylated receptors. They are called non-catalytic receptors, as the receptors have no intrinsic tyrosine kinase activity and cannot phosphorylate their own tyrosine residues.[2] Phosphorylation is mediated by additionally recruited kinases. A prominent member of this receptor family is the T-cell receptor.

Features and Classification

Members of the Non-catalytic tyrosine-phosphorylated receptor family share a couple of common features. The most prominent feature is the presence of conserved signalling motifs containing tyrosine residue, such as Immunoreceptor tyrosine-based activation motifs (ITAMs), in the cytoplasmic tail of the receptors. The receptor signaling pathway is initiated by ligand binding to the extracellular domains of the receptor. Upon binding, the tyrosine residues in the signaling motifs are phosphorylated by membrane-associated tyrosine kinases. The receptors themselves have no intrinsic tyrosine kinase activity. The phosphorylated NTRs, in turn, initiate a specific intracellular signaling cascades. The signaling cascade is down-regulated by dephosphorylation by protein tyrosine phosphatases. Additional characteristics of the receptor family are a rather small (< 20 nm) extracellular domain and the binding to ligands that are anchored to solid surfaces or membranes of other cells. NTRs are exclusively expressed in leukocytes.[2]

Based on those features, about 100 distinct NTRs have been identified. The table below lists different classes of NTRs. Members of a class have a high sequence homology and typically share the same gene locus.[2]

Family Ligands Examples
Antigen receptors found on T cells and B cells (T-cell receptor and B-cell receptor) MHC class I or II loaded with peptide for T-cell receptors, soluble or surface antigens for B-cell receptor TCR BCR
C-type lectin domain family Glycans, Actin, MHC class I Dectin-1, NKG2, BDCA2
CD300 family Unknown CD300A
Classical Fc receptor family Fc region of antibody FcγRI, FcγRII
Fc receptor-like family Unknown FCRL1
KIR family MHC class 1 KIR2DL1, KIR3DL2, KIR2DS1
LILR family MHC class 1 LILRB4
Natural cytotoxicity triggering receptor (NCR) family Viral hemagglutinins, heparan sulfate proteoglycans, activation-induced C-type lectin NKp44, NKp46, NKp30
Paired immunoglobulin-like receptor (PILR) family PILR-associating neural protein (PANP), HSV-1 glycoprotein B PILRA, PILRB
SIGLEC family Endogenous and pathogen-derived sialylated glycans SIGLEC1, SIGLEC8, SIGLEC7, SIGLEC2
CD28 family B7 family of membrane proteins CD28, CTLA-4, ICOS, BTLA
CD200R family CD200 CD200R1, CD5, CD6
Signal-regulatory protein (SIRP) family CD47, surfactant proteins e.g. SPA1 SIRPα
Signaling lymphocytic activation molecule (SLAM) family Homophilic (bind SLAM family members), CD48 SLAMF1, SLAMF3
Collagen receptors Collagen LAIR1 OSCAR GPVI

Structure

NTRs are transmembrane glycoproteins with typically small ectodomains of 6 to 10 nm. NTRs have either an N-terminal or C terminal ectodomains. Ectodomains have a high sequence diversity between members.[2] Many NTRs have an unstructured intracellular domain which contains tyrosine residues that can be phosphorylated by tyrosine kinases. Some receptors in this family, however, lack a cytoplasmic tail and therefore associate with adaptor proteins containing the same tyrosine residues.[3] Adaptor proteins associate to their respective NTR through their transmembrane helixes carrying oppositely charged residues.[3] The cytoplasmic domains do not contain any intrinsic tyrosine kinase activity.

Conserved tyrosine-containing motifs

Tyrosine residues of NTRs mostly appear in conserved amino acid motifs with defined sequence signatures that define whether the receptor plays an activator or inhibiting role in the cell.[4] These motifs allow binding of proteins containing a SH2 domain.[5] Motifs are intrinsic or in the associated adaptor subunits. Immunoreceptor tyrosine-based activation motifs (ITAMs) are short amino acid sequences that contain two tyrosine residues (Y) arranged as Yxx(L/I)x6-8Yxx(L/I), where L and I indicate Leucine or Isoleucine residue respectively (according to amino acid abbreviations), x denotes any amino acids, a subscribe 6-8 indicates a sequence of 6 to 8 amino acids in length.[6] ITAMs recruits activating kinases to the NTR.[5] Inhibitory signals are transduced by Immunoreceptor tyrosine-based inhibitory motifs (ITIMs) of the signature (S/I/V/L)xYxx(I/V/L), bind to cytoplasmic tyrosine phosphatases.[7] Immunoreceptor Tyrosine-based Switch Motifs (ITSMs) with the signature TxYxx(I/V) may induce both activator and inhibitory signals. These motifs are confined to SLAM family receptors.[8] Finally, Immunoglobulin Tail Tyrosine Motifs (ITTMs) with a YxNM signature have been found to have a costimulatory effect.[9]

Signalling Pathway

Biophysics of receptor-ligand binding

The signalling pathway of an NTR is induced upon binding to its respective ligand. NTRs, as they are defined, have a short ectodomain (5 - 10 nm) and bind to surface-anchored ligands. For binding to take place, the membrane of the leukocyte has to come into close proximity to the surface with the ligand. The receptor-ligand complex, once bound, spans a dimension of about 10-16 nm. Ectodomains of other surface molecules can be much larger (up to 50 nm), therefore the membrane has to bend towards the ligand, which introduces tension within the membrane. Additionally, large pulling forces can act on the complex, changing dissociation rates of the complex.[2]

Receptor triggering

NTR triggering, the initial step of the NTR signalling pathway, involves phosphorylation of the tyrosine residues in the cytoplasmic domain of the receptor or the associated adaptor protein. Once phosphorylated, these residues recruit further signalling proteins.[10] Phosphorylation of the tyrosine residues is performed by membrane-anchored Src family kinases (SFK) (e.g. Lck, Fyn, Lyn, Blk), while receptor protein tyrosine phosphatases (RPTP) (e.g. CD45, CD148) mediate the dephosphorylation of the same residues. SFK and RPTP are constitutively active.[11] In an untriggered state, the activity of phosphatases dominates, keeping NTRs in an unphosphorylated state, and thus preventing signal initiation. It has been shown that inhibition of tyrosine phosphatases induces phosphorylation in NTRs and signalling even without ligand binding.[12] It is therefore assumed that a perturbation of SFK and RPTP balance due to ligand binding, leading to stronger kinase activity and hence accumulation of phosphorylated tyrosine residues, is needed for initiation of downstream signalling.

Different mechanisms of how the balance is disturbed upon ligand binding have been suggested. The induced proximity or aggregation model suggests that upon receptor-ligand binding multiple receptors aggregate. SFKs have multiple phosphorylation sites that regulate their catalytic activity.[13] If the kinase is associated with an NTR, aggregation brings two or more SFK into close proximity, which allows them to phosphorylate each other. Hence due to receptor aggregation, SFKs are activated leading to higher kinase activity and increased NTR phosphorylation.[14] Evidence for this model is given by mathematical models[14] and an experiment where artificially cross-linking NTRs led to signal induction.[15] However, there is not sufficient evidence that receptor aggregation happens in vivo.

According to the Conformational change model, binding of a ligand induces a conformational change in the receptor such that the cytosolic domain becomes accessible for kinases. Thus phosphorylation is only possible when the receptor is bound to a ligand.[16] However, structural studies have failed to show conformational changes.[17]

The Kinetic segregation model proposes that RPTPs are physically excluded from NTR-ligand-binding regions. Ectodomains of RPTPs are much larger compared to NTRs and SFKs. The interaction between ligand and receptor brings the membranes into close contact, and the gap between membranes is too narrow for membrane proteins with large ectodomains to diffuse into the region. This increase the ratio of SFKs over RPTPs in the region surrounding the receptor-ligand complex. Any non-bound NTR would diffuse out of these regions too quickly to induce a downstream signal.[18][19] Evidence for this model is given by the observation that in T cells, phosphatases CD45 and CD148 segregate from the T-cell receptor upon ligand binding.[20] It was also shown that truncation of phosphatase ectodomains as well as the elongation of ligand ectodomains reduces the segregation and inhibits NTR triggering.[21][22] Similar findings have been reported for NK cell receptors,[23] CD28 family receptors,[24] Dectin-1.[25]

Downstream signaling pathway

Phosphorylated tyrosine residues in cytoplasmic tails of NTRs serve as docking sites for SH2 domains of cytosolic signalling proteins. Once bound to the NTR they are activated by phosphorylation and can propagate the signal. Whether a receptor acts as an inhibitor or activator depends on the conserved tyrosine-containing motifs present in its cytoplasmic domain. Activatory motifs (ITAMs) bind kinases, such as Syk family kinases (e.g. ZAP70 for T-cell receptor) that phosphorylate a range of substrates, thereby inducing a signalling cascade leading to the activation of the leukocyte.[26] Inhibitory motifs (ITIM) on the other hand recruit the cytoplasmic tyrosine phosphates SHP1, SHP2 and the phosphatidylinositol phosphatase SHIP-1. The phosphatases can attenuate the signal by dephosphorylating a broad range of signalling molecules.[27]

Signal integration from multiple NTRs

At any given time, multiple NTR types can be engaged with their receptive ligands, inducing activatory, costimulatory as well as inhibitory signals. The functional response of the leukocytes depends on the integration of the signals.[28]

References

  1. ↑ 1.0 1.1 "Negative regulation of immunoreceptor signaling". Annual Review of Immunology 20: 669–707. 2002. doi:10.1146/annurev.immunol.20.081501.130710. PMID 11861615. 
  2. ↑ 2.0 2.1 2.2 2.3 2.4 2.5 "Non-catalytic tyrosine-phosphorylated receptors". Immunological Reviews 250 (1): 258–76. November 2012. doi:10.1111/imr.12008. PMID 23046135. 
  3. ↑ 3.0 3.1 "Common themes in the assembly and architecture of activating immune receptors". Nature Reviews. Immunology 7 (11): 841–50. November 2007. doi:10.1038/nri2186. PMID 17960150. 
  4. ↑ "You say ITAM and I say ITIM, let's call the whole thing off: the ambiguity of immunoreceptor signalling". European Journal of Immunology 36 (7): 1646–53. July 2006. doi:10.1002/eji.200636195. PMID 16783855. 
  5. ↑ 5.0 5.1 "The SYK tyrosine kinase: a crucial player in diverse biological functions". Nature Reviews. Immunology 10 (6): 387–402. June 2010. doi:10.1038/nri2765. PMID 20467426. 
  6. ↑ "Immunoreceptor tyrosine-based activation motif (ITAM), a unique module linking antigen and Fc receptors to their signaling cascades". Journal of Leukocyte Biology 61 (1): 6–16. January 1997. doi:10.1002/jlb.61.1.6. PMID 9000531. 
  7. ↑ "Conservation of structural features reveals the existence of a large family of inhibitory cell surface receptors and noninhibitory/activatory counterparts". Journal of Immunology 159 (5): 2075–7. September 1997. PMID 9278290. 
  8. ↑ "Importance and mechanism of 'switch' function of SAP family adapters". Immunological Reviews 232 (1): 229–39. November 2009. doi:10.1111/j.1600-065X.2009.00824.x. PMID 19909367. 
  9. ↑ "The signaling tool box for tyrosine-based costimulation of lymphocytes". Current Opinion in Immunology 23 (3): 324–9. June 2011. doi:10.1016/j.coi.2011.01.005. PMID 21324660. https://zenodo.org/record/3416362. 
  10. ↑ "Proximal protein tyrosine kinases in immunoreceptor signaling". Current Opinion in Immunology 13 (3): 299–306. June 2001. doi:10.1016/S0952-7915(00)00219-3. PMID 11406361. 
  11. ↑ "Constitutively active Lck kinase in T cells drives antigen receptor signal transduction". Immunity 32 (6): 766–77. June 2010. doi:10.1016/j.immuni.2010.05.011. PMID 20541955. 
  12. ↑ "Initiation of T cell signaling by CD45 segregation at 'close contacts'". Nature Immunology 17 (5): 574–582. May 2016. doi:10.1038/ni.3392. PMID 26998761. 
  13. ↑ "Src family kinases: regulation of their activities, levels and identification of new pathways". Biochimica et Biophysica Acta 1784 (1): 56–65. January 2008. doi:10.1016/j.bbapap.2007.08.012. PMID 17905674. 
  14. ↑ 14.0 14.1 "A mechanism for SRC kinase-dependent signaling by noncatalytic receptors". Biochemistry 47 (21): 5681–5688. May 2008. doi:10.1021/bi8003044. PMID 18444664. 
  15. ↑ "Suboptimal cross-linking of antigen receptor induces Syk-dependent activation of p70S6 kinase through protein kinase C and phosphoinositol 3-kinase". The Journal of Biological Chemistry 274 (14): 9812–20. April 1999. doi:10.1074/jbc.274.14.9812. PMID 10092671. 
  16. ↑ "Regulation of T cell receptor activation by dynamic membrane binding of the CD3epsilon cytoplasmic tyrosine-based motif". Cell 135 (4): 702–13. November 2008. doi:10.1016/j.cell.2008.09.044. PMID 19013279. 
  17. ↑ "What controls T cell receptor phosphorylation?". Cell 142 (5): 668–9. September 2010. doi:10.1016/j.cell.2010.08.018. PMID 20813251. 
  18. ↑ "The structure and ligand interactions of CD2: implications for T-cell function". Immunology Today 17 (4): 177–87. April 1996. doi:10.1016/0167-5699(96)80617-7. PMID 8871350. 
  19. ↑ "The kinetic-segregation model: TCR triggering and beyond". Nature Immunology 7 (8): 803–9. August 2006. doi:10.1038/ni1369. PMID 16855606. 
  20. ↑ "T cell receptor-proximal signals are sustained in peripheral microclusters and terminated in the central supramolecular activation cluster". Immunity 25 (1): 117–27. July 2006. doi:10.1016/j.immuni.2006.04.010. PMID 16860761. 
  21. ↑ "CD45 ectodomain controls interaction with GEMs and Lck activity for optimal TCR signaling". Nature Immunology 4 (2): 189–97. February 2003. doi:10.1038/ni877. PMID 12496963. 
  22. ↑ "T-cell receptor triggering is critically dependent on the dimensions of its peptide-MHC ligand". Nature 436 (7050): 578–82. July 2005. doi:10.1038/nature03843. PMID 16049493. Bibcode: 2005Natur.436..578C. 
  23. ↑ "Ligand dimensions are important in controlling NK-cell responses". European Journal of Immunology 40 (7): 2050–9. July 2010. doi:10.1002/eji.201040335. PMID 20432238. 
  24. ↑ "Programmed cell death 1 forms negative costimulatory microclusters that directly inhibit T cell receptor signaling by recruiting phosphatase SHP2". The Journal of Experimental Medicine 209 (6): 1201–17. June 2012. doi:10.1084/jem.20112741. PMID 22641383. 
  25. ↑ "Activation of the innate immune receptor Dectin-1 upon formation of a 'phagocytic synapse'". Nature 472 (7344): 471–5. April 2011. doi:10.1038/nature10071. PMID 21525931. Bibcode: 2011Natur.472..471G. 
  26. ↑ "Insights into the allosteric regulation of Syk association with receptor ITAM, a multi-state equilibrium". Physical Chemistry Chemical Physics 18 (8): 5807–18. February 2016. doi:10.1039/c5cp05417f. PMID 26468009. Bibcode: 2016PCCP...18.5807F. 
  27. ↑ "ITIM receptors: more than just inhibitors of platelet activation". Blood 129 (26): 3407–3418. June 2017. doi:10.1182/blood-2016-12-720185. PMID 28465343. 
  28. ↑ "Immune inhibitory receptors". Science 290 (5489): 84–9. October 2000. doi:10.1126/science.290.5489.84. PMID 11021804. Bibcode: 2000Sci...290...84R. 




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