Immunodeficiency 35

disease
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Also known as autosomal recessive hyper-IgE syndrome due to TYK2 deficiencyautosomal recessive mendelian susceptibility to mycobacterial diseases due to a partial deficiency caused by mutation in TYK2HIES with atypical Mycobacteriosis, autosomal recessivehyper-IgE syndrome with atypical Mycobacteriosis, autosomal recessiveIMD35immunodeficiency type 35susceptibility to infection due to TYK2 deficiencyTYK2 autosomal recessive mendelian susceptibility to mycobacterial diseases due to a partial deficiencyTYK2 deficiencytyrosine kinase 2 deficiency

Summary

Immunodeficiency 35 (MONDO:0012682) is a disease caused by TYK2 (GenCC Strong), with 3 cohort genes.

At a glance

  • Prevalence: <1 / 1 000 000 (Worldwide) [Orphanet-validated]
  • Causal gene: TYK2 (GenCC Strong)
  • Cohort genes: 3
  • ClinVar variants: 948

Clinical features

Epidemiology

Prevalence records

2 prevalence record(s), Orphanet:

TypeClassValueGeographyValidation
Cases/families8WorldwideValidated
Point prevalence<1 / 1 000 000WorldwideValidated

Identifiers

Disease identifiers

FieldValue
Canonical nameimmunodeficiency 35
Mondo IDMONDO:0012682
MeSHC566928
OMIM611521
Orphanet331226
DOIDDOID:0111989
UMLSC1969086
MedGen409751
GARD0017514
Is cancer (heuristic)no

Also known as: autosomal recessive hyper-IgE syndrome due to TYK2 deficiency · autosomal recessive mendelian susceptibility to mycobacterial diseases due to a partial deficiency caused by mutation in TYK2 · HIES with atypical Mycobacteriosis, autosomal recessive · hyper-IgE syndrome with atypical Mycobacteriosis, autosomal recessive · IMD35 · immunodeficiency 35 · immunodeficiency type 35 · susceptibility to infection due to TYK2 deficiency · TYK2 autosomal recessive mendelian susceptibility to mycobacterial diseases due to a partial deficiency · TYK2 deficiency · tyrosine kinase 2 deficiency

Data availability: 948 ClinVar variants · 3 GenCC gene-disease records.

Disease family

Classification path: disease › human disease › disease by etiologic mechanism › disease of genetic or genomic mechanism › hereditary diseaseimmunodeficiency diseaseimmunodeficiency 35

Related subtypes (94): B cell deficiency, T-cell immunodeficiency, complement deficiency, myalgic encephalomeyelitis/chronic fatigue syndrome, hypoproteinemia, hypercatabolic, X-linked lymphoproliferative syndrome, Wiskott-Aldrich syndrome, autosomal dominant form, immunodeficiency due to CD25 deficiency, immunodeficiency 67, primary immunodeficiency with natural-killer cell deficiency and adrenal insufficiency, pyogenic bacterial infections due to MyD88 deficiency, lymphoproliferative syndrome 1, FADD-related immunodeficiency, immunodeficiency 31B, Wiskott-Aldrich syndrome 2, cryptosporidiosis-chronic cholangitis-liver disease syndrome, idiopathic CD4 lymphocytopenia, immunodeficiency 23, DOCK2 deficiency, immunodeficiency 45, TFRC-related combined immunodeficiency, combined immunodeficiency, autoimmune hemolytic anemia-autoimmune thrombocytopenia-primary immunodeficiency syndrome, immunodeficiency due to selective anti-polysaccharide antibody deficiency, immunodeficiency 57, immunodeficiency 14b, autosomal recessive, immunodeficiency 98 with autoinflammation, X-linked, immunodeficiency 102, immunodeficiency 74, COVID-19-related, X-linked, immunodeficiency 66, immunodeficiency 80 with or without congenital cardiomyopathy, immunodeficiency 81, immunodeficiency 82 with systemic inflammation, immunodeficiency 84, immunodeficiency 85 and autoimmunity, immunodeficiency 86, immunodeficiency 87 and autoimmunity, immunodeficiency 88, immunodeficiency 89 and autoimmunity, immunodeficiency 91 and hyperinflammation, immunodeficiency 92, immunodeficiency 93 and hypertrophic cardiomyopathy, immunodeficiency 95, immunodeficiency 96, immunodeficiency 97 with autoinflammation, immunodeficiency 99 with hypogammaglobulinemia and autoimmune cytopenias, immunodeficiency 101 (varicella zoster virus-specific), immunodeficiency 75, immunodeficiency 76, immunodeficiency 106, susceptibility to viral infections, immunodeficiency 78 with autoimmunity and developmental delay, immunodeficiency 77, immunodeficiency 107, susceptibility to invasive staphylococcus aureus infection, immunodeficiency 15a, immunodeficiency 60, immunodeficiency 62, immunodeficiency 63 with lymphoproliferation and autoimmunity, immunodeficiency 64, immunodeficiency 65, susceptibility to viral infections, immunodeficiency 69, immunodeficiency 70, immunodeficiency 72 with autoinflammation, GATA2 deficiency with susceptibility to MDS/AML, Shwachman-Diamond syndrome 1, immunodeficiency 53, immunodeficiency 11b with atopic dermatitis, IKBKG-related immunodeficiency with or without ectodermal dysplasia, FNIP1-associated syndrome, FASLG-related immunodeficiency, TNFRSF9-related immunodeficiency, DNAJC21-related Shwachman Diamond syndrome, IRF4-related immune disorder, PTEN harmartoma tumor syndrome with immune disorder, primary immunodeficiency due to calcium channel deficiency, chronic mucocutaneous candidiasis and connective tissue disease due to JNK1 haploinsufficiency, immune deficiency due to impaired neutrophil phagocytosis and migration, hatipoglu immunodeficiency syndrome, immunodeficiency 112, immunodeficiency 113 with autoimmunity and autoinflammation, immunodeficiency 114, folate-responsive, immunodeficiency 115 with autoinflammation, immunodeficiency 117, immunodeficiency 118, immunodeficiency 119, immunodeficiency 121 with autoinflammation, immunodeficiency 122, immunodeficiency 123 with HPV-related verrucosis, immunodeficiency 125, immunodeficiency 126, susceptibility to, immunodeficiency 127, immunodeficiency 128, immunodeficiency 132b, immunodeficiency 133 with ectodermal dysplasia with or without peripheral neuropathy, immunodeficiency 134 (Epstein-Barr virus-specific)

Genetics & variants

GWAS landscape

No GWAS associations recorded — common-variant (GWAS) studies don’t cover this disease (typical for Mendelian / rare diseases). See the curated gene cohort and Mendelian overlap below.

Variant details and genetic-evidence tiers

ClinVar germline variants

600 retrieved; paginated sample, class counts are floors:

275 likely benign, 247 uncertain significance, 27 benign, 24 pathogenic, 13 conflicting classifications of pathogenicity, 9 likely pathogenic, 5 benign/likely benign

ClinVarVariant (HGVS)GeneClassificationReview
3248456NC_000019.9:g.(?10244343)(10610709_?)delMRPL4Pathogeniccriteria provided, single submitter
1069417NM_003331.5(TYK2):c.2573C>G (p.Ser858Ter)TYK2Pathogeniccriteria provided, single submitter
1425910NM_003331.5(TYK2):c.2393G>A (p.Trp798Ter)TYK2Pathogeniccriteria provided, multiple submitters, no conflicts
1459846NC_000019.9:g.(?10463090)(10465305_?)delTYK2Pathogeniccriteria provided, single submitter
155930NM_003331.5(TYK2):c.2303_2311del (p.Ser768_Glu771delinsTer)TYK2Pathogenicno assertion criteria provided
1703747NM_003331.5(TYK2):c.2269C>G (p.Leu757Val)TYK2Pathogenicno assertion criteria provided
1703748NM_003331.5(TYK2):c.3041T>C (p.Leu1014Pro)TYK2Pathogenicno assertion criteria provided
1703749NM_003331.5(TYK2):c.1253C>A (p.Ser418Ter)TYK2Pathogenicno assertion criteria provided
1703750NM_003331.5(TYK2):c.2395G>A (p.Gly799Arg)TYK2Pathogenicno assertion criteria provided
2022602NM_003331.5(TYK2):c.1148dup (p.Thr384fs)TYK2Pathogeniccriteria provided, single submitter
224885NM_003331.4(TYK2):c.3318_3319insCTYK2Pathogenicno assertion criteria provided
224886NM_003331.5(TYK2):c.460G>T (p.Glu154Ter)TYK2Pathogenicno assertion criteria provided
224887NM_003331.5(TYK2):c.149del (p.Ser50fs)TYK2Pathogenicno assertion criteria provided
224888NM_003331.5(TYK2):c.1912C>T (p.Arg638Ter)TYK2Pathogeniccriteria provided, single submitter
225508NM_003331.5(TYK2):c.209_212del (p.Cys70fs)TYK2Pathogeniccriteria provided, multiple submitters, no conflicts
2704548NM_003331.5(TYK2):c.2488C>T (p.Gln830Ter)TYK2Pathogeniccriteria provided, single submitter
2739687NM_003331.5(TYK2):c.1904dup (p.Glu636fs)TYK2Pathogeniccriteria provided, single submitter
2761990NM_003331.5(TYK2):c.2920_2941del (p.Leu974fs)TYK2Pathogeniccriteria provided, single submitter
2764448NM_003331.5(TYK2):c.424C>T (p.Gln142Ter)TYK2Pathogeniccriteria provided, single submitter
2911814NM_003331.5(TYK2):c.463C>T (p.Gln155Ter)TYK2Pathogeniccriteria provided, single submitter
2971918NM_003331.5(TYK2):c.1825C>T (p.Arg609Ter)TYK2Pathogeniccriteria provided, single submitter
3248457NC_000019.9:g.(?10469831)(10469998_?)delTYK2Pathogeniccriteria provided, single submitter
3619403NM_003331.5(TYK2):c.905del (p.Asp302fs)TYK2Pathogeniccriteria provided, single submitter
3659006NM_003331.5(TYK2):c.2873_2874insTGTA (p.Ile959fs)TYK2Pathogeniccriteria provided, single submitter
1067902NM_003331.5(TYK2):c.2047+1G>TTYK2Likely pathogeniccriteria provided, single submitter
1514893NM_003331.5(TYK2):c.1773+1G>TTYK2Likely pathogeniccriteria provided, single submitter
2068667NM_003331.5(TYK2):c.2311+1G>TTYK2Likely pathogeniccriteria provided, single submitter
2701324NM_003331.5(TYK2):c.629+2T>CTYK2Likely pathogeniccriteria provided, single submitter
2974814NM_003331.5(TYK2):c.1011+2T>GTYK2Likely pathogeniccriteria provided, single submitter
3064089NM_003331.5(TYK2):c.2466+1G>TTYK2Likely pathogeniccriteria provided, single submitter

Genes & proteins

Mendelian disease overlap and somatic drivers

GenCC: 3 · Orphanet: 3 · OMIM-shared: 0 · Dual-evidence (GWAS+Mendelian): 0

GenCC gene–disease validity (cohort genes)

the Disease column is the GenCC-asserted condition — a cohort gene’s strongest validity may be for a related predisposition syndrome.

GeneClassificationInheritanceDiseaseRecords
TYK2StrongAutosomal recessiveimmunodeficiency 353

Orphanet rare-disease linkage (cohort genes)

GeneOrphanet IDRare disease
TYK2Orphanet:300865Primary cutaneous anaplastic large cell lymphoma
TYK2Orphanet:331226Susceptibility to infection due to TYK2 deficiency
TYK2Orphanet:98842Lymphomatoid papulosis

Cohort genes → proteins

3 cohort genes, 3 distinct canonical proteins.

Evidence partition

SubsetGenes
multi_evidence3

Cohort genes (full)

SymbolHGNCEnsemblUniProtNameEvidence
TYK2HGNC:12440ENSG00000105397P29597Non-receptor tyrosine-protein kinase TYK2gencc,clinvar
MRPL4HGNC:14276ENSG00000105364Q9BYD3Large ribosomal subunit protein uL4mclinvar
CDC37HGNC:1735ENSG00000105401Q16543Hsp90 co-chaperone Cdc37clinvar

Cohort function summary

Lead sentence per gene, UniProt-curated.

SymbolProtein nameFunction (lead sentence)
TYK2Non-receptor tyrosine-protein kinase TYK2Tyrosine kinase of the non-receptor type involved in numerous cytokines and interferons signaling, which regulates cell growth, development, cell migration, innate and adaptive immunity.
CDC37Hsp90 co-chaperone Cdc37Co-chaperone that binds to numerous kinases and promotes their interaction with the Hsp90 complex, resulting in stabilization and promotion of their activity.

Protein-family classification

Druggable: 1 · Difficult: 0 · Unknown: 2 · Druggable fraction: 0.33

Family distribution

Cohort families vs a genome-wide background (hypergeometric, BH-FDR; fold = observed/expected). Counts kept; sorted by enrichment, so the catch-all Other/Unknown bucket no longer leads.

FamilyGenesFoldFDR
Kinase19.2×0.209
Other/Unknown21.2×0.587

Per-gene assignment

SymbolFamilyDruggable?ECInterPro (top 3)
TYK2Kinaseyes2.7.10.2FERM_domain, Prot_kinase_dom, SH2
MRPL4Other/UnknownnoRibosomal_uL4, Ribosomal_uL4-like, Ribosomal_uL4_dom_sf
CDC37Other/UnknownnoCdc37, Cdc37_N_dom, Cdc37_C

Expression context

Cohort genes with no expression data: 0.

3 cohort genes are a single-cell marker in ≥1 SCXA experiment.

Breadth distribution (Bgee present_calls)

BucketGenes
narrow (1-5 tissues)0
moderate (6-20)0
broad (>20)3
unknown0

Top tissues across cohort

TissueCohort genes
granulocyte2
apex of heart2
adenohypophysis1
right hemisphere of cerebellum1
lower esophagus mucosa1
mucosa of transverse colon1
sural nerve1

Per-gene tissue summary (top 30)

SymbolBgee breadthFANTOM5 breadthSCXATop tissues
TYK2288ubiquitousmarkergranulocyte, right hemisphere of cerebellum, adenohypophysis
MRPL4271ubiquitousmarkerapex of heart, mucosa of transverse colon, lower esophagus mucosa
CDC37293broadmarkersural nerve, apex of heart, granulocyte

Protein interactions among cohort

Intra-cohort edges: 0.

Hub genes (top 10 by interactor count)

SymbolInteractor count
MRPL45,173
CDC374,773
TYK23,932

Structural data

PDB: 3 · AlphaFold-only: 0 · No structure: 0

Cohort genes with PDB structures (top 30)

SymbolUniProtPDB entries
MRPL4Q9BYD387
TYK2P2959752
CDC37Q1654319

Function

Pathway analysis

Distinct Reactome pathways touched by cohort: 64. Enrichment computed across 3 evidence-associated genes (3 with Reactome annotation).

Pathways by enrichment

Over-representation of cohort genes vs the genome-wide background (hypergeometric test, Benjamini-Hochberg FDR; fold = observed/expected over 3 annotated cohort genes). Counts and members are kept as ground-truth; sorted by enrichment.

PathwayCohort genesFoldFDRSample cohort genes
Drug resistance in ERBB2 KD mutants13806.7×0.006CDC37
Drug-mediated inhibition of ERBB2 signaling1951.7×0.006CDC37
Resistance of ERBB2 KD mutants to trastuzumab1951.7×0.006CDC37
Resistance of ERBB2 KD mutants to sapitinib1951.7×0.006CDC37
Resistance of ERBB2 KD mutants to tesevatinib1951.7×0.006CDC37
Resistance of ERBB2 KD mutants to neratinib1951.7×0.006CDC37
Resistance of ERBB2 KD mutants to osimertinib1951.7×0.006CDC37
Resistance of ERBB2 KD mutants to afatinib1951.7×0.006CDC37
Resistance of ERBB2 KD mutants to AEE7881951.7×0.006CDC37
Resistance of ERBB2 KD mutants to lapatinib1951.7×0.006CDC37
Drug resistance in ERBB2 TMD/JMD mutants1951.7×0.006CDC37
Signaling by ERBB2 in Cancer1761.3×0.006CDC37
Signaling by EGFRvIII in Cancer1761.3×0.006CDC37
Signaling by Ligand-Responsive EGFR Variants in Cancer1634.4×0.007CDC37
Interleukin-23 signaling1423.0×0.009TYK2
MAPK1 (ERK2) activation1380.7×0.009TYK2
Signaling by EGFR in Cancer1380.7×0.009CDC37
MAPK3 (ERK1) activation1346.1×0.009TYK2
Interleukin-27 signaling1346.1×0.009TYK2
Interleukin-6 signaling1317.2×0.009TYK2
Interleukin-35 Signalling1317.2×0.009TYK2
Constitutive Signaling by Overexpressed ERBB21317.2×0.009CDC37
RHOBTB GTPase Cycle1271.9×0.010CDC37
Regulated Necrosis1237.9×0.011CDC37
Constitutive Signaling by EGFRvIII1237.9×0.011CDC37
Signaling by ERBB2 ECD mutants1223.9×0.011CDC37
IL-6-type cytokine receptor ligand interactions1211.5×0.011TYK2
Constitutive Signaling by Ligand-Responsive EGFR Cancer Variants1190.3×0.012CDC37
Signaling by CSF3 (G-CSF)1190.3×0.012TYK2
Other interleukin signaling1158.6×0.012TYK2

GO biological processes by enrichment

Over-representation of cohort genes vs the genome-wide background (hypergeometric test, Benjamini-Hochberg FDR; fold = observed/expected over 3 annotated cohort genes). Counts and members are kept as ground-truth; sorted by enrichment.

GO termCohort genesFoldFDRSample cohort genes
regulation of type II interferon-mediated signaling pathway12808.7×0.006CDC37
regulation of type I interferon-mediated signaling pathway11404.3×0.006CDC37
interleukin-23-mediated signaling pathway1936.2×0.006TYK2
positive regulation of NK T cell proliferation1936.2×0.006TYK2
interleukin-12-mediated signaling pathway1624.1×0.006TYK2
type III interferon-mediated signaling pathway1510.7×0.006TYK2
growth hormone receptor signaling pathway via JAK-STAT1510.7×0.006TYK2
positive regulation of type 2 mitophagy1510.7×0.006CDC37
positive regulation of natural killer cell proliferation1468.1×0.006TYK2
interleukin-10-mediated signaling pathway1468.1×0.006TYK2
positive regulation of T-helper 17 type immune response1468.1×0.006TYK2
type II interferon-mediated signaling pathway1401.2×0.007TYK2
regulation of cyclin-dependent protein serine/threonine kinase activity1244.2×0.010CDC37
post-transcriptional regulation of gene expression1216.1×0.011CDC37
positive regulation of interleukin-17 production1200.6×0.011TYK2
positive regulation of receptor signaling pathway via JAK-STAT1144.0×0.014TYK2
positive regulation of protein localization to nucleus1130.6×0.014TYK2
protein targeting1122.1×0.015CDC37
type I interferon-mediated signaling pathway1114.6×0.015TYK2
cell surface receptor signaling pathway via JAK-STAT196.8×0.016TYK2
positive regulation of T cell proliferation186.4×0.018TYK2
positive regulation of type II interferon production174.9×0.019TYK2
cellular response to virus166.9×0.021TYK2
mitochondrial translation157.9×0.023MRPL4
cytokine-mediated signaling pathway143.5×0.029TYK2
protein folding134.5×0.034CDC37
cell population proliferation134.2×0.034TYK2
protein phosphorylation122.6×0.049TYK2
protein stabilization122.3×0.049CDC37
immune response115.7×0.067TYK2

Therapeutics

Drug target analysis

Approved (phase 4): 1 · Phase ≥3: 1 · Phased (≥1): 1 · Undrugged: 2

Druggability breadth: 2 of 3 evidence-associated genes (67%) have a ChEMBL target (buckets above are over the deeply-mined display cohort).

Genes with an approved drug

The molecule shown is one approved compound that hits the gene — not necessarily a drug of choice or one indicated for this disease.

SymbolExample approved molecule
TYK2FEDRATINIB

Top cohort targets by molecule count

SymbolMoleculesMax phase
TYK2724
MRPL400
CDC3700

Drugs targeting cohort genes (top 30)

MoleculeMax phaseTargets in cohort
FEDRATINIB4TYK2
RUXOLITINIB4TYK2
TOFACITINIB4TYK2
UPADACITINIB4TYK2
BARICITINIB4TYK2
FILGOTINIB4TYK2
ABROCITINIB4TYK2
DEUCRAVACITINIB4TYK2
MOMELOTINIB4TYK2
AXITINIB4TYK2
RUXOLITINIB PHOSPHATE4TYK2
INFIGRATINIB PHOSPHATE4TYK2
INFIGRATINIB4TYK2
PACRITINIB4TYK2
TOFACITINIB CITRATE4TYK2
BOSUTINIB4TYK2
PEFICITINIB4TYK2
CRAVACITINIB4TYK2
PAZOPANIB4TYK2
NINTEDANIB4TYK2
SUNITINIB4TYK2
DASATINIB4TYK2
ERLOTINIB4TYK2
CRIZOTINIB4TYK2
MIDOSTAURIN4TYK2
IMATINIB4TYK2
DELGOCITINIB3TYK2
DEFACTINIB3TYK2
ITACITINIB3TYK2
ALVOCIDIB3TYK2

Bioactivity and enzyme data

Enzyme cohort genes (≥1 EC): 1.

Cohort genes with ChEMBL bioactivity (full, sorted by assay count)

SymbolAssaysType breakdown
TYK21,083Binding:1043, Functional:39, ADMET:1
CDC3751Binding:51

Cohort enzymes (BRENDA EC)

SymbolEC numbersNames
TYK22.7.10.2non-specific protein-tyrosine kinase

Cohort genes with high screening signal

≥100 ChEMBL assays — a studied-ness signal; see Therapeutics for approved-drug status.

SymbolChEMBL assays
TYK21,083

Pharmacogenomics

Cohort genes with a PharmGKB record: 3; with CPIC/DPWG dosing guidelines: 0.

No cohort gene has a CPIC/DPWG genotype-guided dosing guideline (PharmGKB).

Chemical tractability of cohort targets

30 approved/phased compounds have measured bioactivity against a cohort gene (and aren’t yet in disease-level trials). This is a research / tractability signal, NOT a therapeutic recommendation — a bioactivity row often reflects off-target or screening binding (e.g. promiscuous kinase inhibitors against a cohort kinase), implying no disease mechanism.

CompoundMax phaseCohort target (bioactivity)
FEDRATINIB4TYK2
RUXOLITINIB4TYK2
TOFACITINIB4TYK2
UPADACITINIB4TYK2
BARICITINIB4TYK2
FILGOTINIB4TYK2
ABROCITINIB4TYK2
DEUCRAVACITINIB4TYK2
MOMELOTINIB4TYK2
AXITINIB4TYK2
RUXOLITINIB PHOSPHATE4TYK2
INFIGRATINIB PHOSPHATE4TYK2
INFIGRATINIB4TYK2
PACRITINIB4TYK2
TOFACITINIB CITRATE4TYK2
BOSUTINIB4TYK2
PEFICITINIB4TYK2
CRAVACITINIB4TYK2
PAZOPANIB4TYK2
NINTEDANIB4TYK2
SUNITINIB4TYK2
DASATINIB4TYK2
ERLOTINIB4TYK2
CRIZOTINIB4TYK2
MIDOSTAURIN4TYK2
IMATINIB4TYK2
DELGOCITINIB3TYK2
DEFACTINIB3TYK2
ITACITINIB3TYK2
ALVOCIDIB3TYK2

Druggability pyramid

Cohort genes binned by druggability tier (high → low):

TierDefinitionGenesSymbols
AApproved (phase 4 drug)1TYK2
BPhased (≥1) drug, not yet approved0
CDruggable family + PDB, no drug0
DDruggable family + AlphaFold only, no drug0
EDifficult family or no structure, no drug2MRPL4, CDC37

Undrugged target profiles

2 cohort genes are undrugged. Ranked by ‘starting-point quality’ (assay depth + drugged-partner adjacency).

SymbolChEMBL assaysDrugged partners (top 3)
MRPL40
CDC3751

Clinical trials & evidence

Clinical trials

Clinical trials: 0.