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TMPRSS4

gene
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Also known as TMPRSS3MT-SP2CAP2

Summary

TMPRSS4 (transmembrane serine protease 4, HGNC:11878) is a protein-coding gene on chromosome 11q23.3, encoding Transmembrane protease serine 4 (Q9NRS4). Plasma membrane-anchored serine protease that directly induces processing of pro-uPA/PLAU into the active form through proteolytic activity.

This gene encodes a member of the serine protease family. Serine proteases are known to be involved in a variety of biological processes, whose malfunction often leads to human diseases and disorders. This gene was identified as a gene overexpressed in pancreatic carcinoma. The encoded protein is membrane bound with a N-terminal anchor sequence and a glycosylated extracellular region containing the serine protease domain. The protein has been found to promote SARS-CoV-2 entry into host cells.

Source: NCBI Gene 56649 — RefSeq curated summary.

At a glance

  • Gene–disease (curated): cardiomyopathy, dilated, 2I (Moderate, GenCC) — +2 more curated relationships
  • GWAS associations: 5
  • Clinical variants (ClinVar): 178 total — 3 pathogenic, 1 likely-pathogenic
  • GTEx eGene: eQTL in 10 tissues, sQTL in 11 (q < 0.05)
  • Phenotypes (HPO): 18
  • ChEMBL bioactivity: 1 clinical-phase molecule tested; no curated mechanism-of-action drug
  • Constraint (gnomAD): pLI 0.00 (LoF-tolerant), LOEUF 0.94 (unconstrained)
  • MANE Select transcript: NM_019894
  • Notable: 178 clinical variants but no curated precision-oncology (CIViC) evidence yet

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:11878
Approved symbolTMPRSS4
Nametransmembrane serine protease 4
Location11q23.3
Locus typegene with protein product
StatusApproved
AliasesTMPRSS3, MT-SP2, CAP2
Ensembl geneENSG00000137648
Ensembl biotypeprotein_coding
OMIM606565
Entrez56649

Gene structure

Transcript identifiers

Ensembl transcripts: 33 — 19 protein_coding, 7 retained_intron, 6 nonsense_mediated_decay, 1 protein_coding_CDS_not_defined

MANE Select: ENST00000437212

Transcript support level (Ensembl TSL; 1 = fully mRNA-supported): TSL 1: 3, TSL 2: 7, TSL 3: 6, TSL 5: 3

ENST00000437212, ENST00000517483, ENST00000517544, ENST00000518413, ENST00000518610, ENST00000519126, ENST00000519236, ENST00000519813, ENST00000520063, ENST00000522151, ENST00000522307, ENST00000522462, ENST00000522824, ENST00000523251, ENST00000523770, ENST00000524218, ENST00000528118, ENST00000534111, ENST00000616579, ENST00000714375, ENST00000714378, ENST00000896311, ENST00000896312, ENST00000896313, ENST00000896314, ENST00000951076, ENST00001001579, ENST00001001580, ENST00001026057, ENST00001106981, ENST00001106982, ENST00001113618, ENST00001144354

RefSeq mRNA: 6 — MANE Select: NM_019894 NM_001083947, NM_001173551, NM_001173552, NM_001290094, NM_001290096, NM_019894

CCDS: CCDS31684, CCDS44743, CCDS53716, CCDS53717, CCDS76482

Canonical transcript exons

ENST00000437212 — 13 exons

ExonStartEnd
ENSE00001292654118094816118094855
ENSE00002096545118077078118077305
ENSE00002121417118098985118099098
ENSE00002182667118117902118121890
ENSE00003509163118115138118115280
ENSE00003512276118111741118111900
ENSE00003539015118103101118103253
ENSE00003585962118107774118107875
ENSE00003618968118104691118104820
ENSE00003647038118108856118108896
ENSE00003652413118117305118117454
ENSE00003654765118113269118113435
ENSE00003666776118114829118114927

Expression profiles

Bgee: expression breadth ubiquitous, 195 present calls, max score 98.96.

FANTOM5 (CAGE): breadth broad, TPM avg 5.1991 / max 483.2150, expressed in 297 samples.

Highest expression (Bgee): mucosa of transverse colon, lower esophagus mucosa, nasal cavity epithelium, palpebral conjunctiva, esophagus mucosa.

Genetic regulation across tissues (GTEx eQTL / sQTL)

TMPRSS4 is an eGene in GTEx v10 — its expression is genetically regulated (eQTL) in 10 tissues and its splicing (sQTL) in 11 (q < 0.05). Strongest associations first; slope = normalized effect of the lead variant’s alternative allele.

showing 20 of 21 significant tissue × QTL associations:

TissueQTLq-valueSlopeLead variant
Esophagus Mucosasqtl0.0e+00-1.6911:118094815:A:G
Skin Not Sun Exposed Suprapubicsqtl1.5e-102-1.4311:118094815:A:G
Skin Sun Exposed Lower legsqtl7.3e-86-1.3011:118094815:A:G
Colon Transversesqtl3.8e-59-1.4311:118094815:A:G
Stomachsqtl2.8e-33-1.2211:118094815:A:G
Minor Salivary Glandsqtl2.3e-20-1.5311:118094815:A:G
Esophagus Mucosaeqtl2.9e-18+0.4811:118125485:A:G
Skin Sun Exposed Lower legeqtl2.4e-14+0.2311:118075631:G:GGTT
Skin Not Sun Exposed Suprapubiceqtl3.3e-10+0.2111:118075631:G:GGTT
Vaginasqtl1.4e-09-1.2411:118094815:A:G
Prostatesqtl1.6e-06-0.9611:118094815:A:G
Small Intestine Terminal Ileumsqtl9.8e-06-1.5111:118094815:A:G
Thyroideqtl6.6e-05+0.2311:118088194:A:G
Lungeqtl3.0e-03+0.1511:118076739:C:T
Stomacheqtl5.4e-03+0.1311:118071132:A:C
Esophagus Musculariseqtl9.4e-03-0.6711:118398959:A:G
Minor Salivary Glandeqtl1.6e-02+0.5511:117907214:C:G
Kidney Cortexsqtl2.0e-02+1.5011:118094815:A:G
Colon Transverseeqtl2.1e-02-0.0711:118094815:A:G
Testissqtl3.0e-02-1.0811:117471957:T:C

FANTOM5 promoters

2 alternative TSS:

Promoter IDTPM avgSamples expressed
1169654.9760294
1169640.223180

Top tissues by expression

showing 100 of 279 tissues by Bgee expression score (0-100, higher = more expressed):

TissueAnatomy IDExpression scoreQuality
mucosa of transverse colonUBERON:000499198.96gold quality
lower esophagus mucosaUBERON:003583498.93gold quality
nasal cavity epitheliumUBERON:000538498.57gold quality
palpebral conjunctivaUBERON:000181297.84gold quality
esophagus mucosaUBERON:000246997.48gold quality
rectumUBERON:000105297.31gold quality
olfactory segment of nasal mucosaUBERON:000538696.54gold quality
epithelium of nasopharynxUBERON:000195194.86gold quality
colonic mucosaUBERON:000031794.71gold quality
esophagus squamous epitheliumUBERON:000692094.53gold quality
gall bladderUBERON:000211094.40gold quality
epithelium of esophagusUBERON:000197694.27gold quality
mucosa of sigmoid colonUBERON:000499393.67gold quality
nasal cavity mucosaUBERON:000182693.49gold quality
ileal mucosaUBERON:000033191.95gold quality
colonic epitheliumUBERON:000039791.31gold quality
duodenumUBERON:000211490.83gold quality
pharyngeal mucosaUBERON:000035590.74gold quality
squamous epitheliumUBERON:000691490.57gold quality
oral cavityUBERON:000016790.10gold quality
epithelium of bronchusUBERON:000203189.06gold quality
pancreatic ductal cellCL:000207988.94gold quality
transverse colonUBERON:000115788.85gold quality
mucosa of urinary bladderUBERON:000125988.84gold quality
bronchusUBERON:000218588.76gold quality
bronchial epithelial cellCL:000232887.36gold quality
urinary bladderUBERON:000125587.04gold quality
gingivaUBERON:000182886.52gold quality
gingival epitheliumUBERON:000194986.51gold quality
metanephros cortexUBERON:001053386.30gold quality
small intestine Peyer’s patchUBERON:000345485.22gold quality
small intestineUBERON:000210885.03gold quality
tongue squamous epitheliumUBERON:000691984.89silver quality
buccal mucosa cellCL:000233683.77gold quality
tracheaUBERON:000312683.03gold quality
epithelial cell of pancreasCL:000008382.97silver quality
tonsilUBERON:000237282.82gold quality
vaginaUBERON:000099681.84gold quality
type B pancreatic cellCL:000016981.81gold quality
olfactory bulbUBERON:000226481.71gold quality
cervix squamous epitheliumUBERON:000692281.53silver quality
jejunal mucosaUBERON:000039981.39gold quality
intestineUBERON:000016080.78gold quality
mucosa of paranasal sinusUBERON:000503080.58gold quality
vermiform appendixUBERON:000115480.32gold quality
adult mammalian kidneyUBERON:000008280.11gold quality
large intestineUBERON:000005979.21gold quality
cervix epitheliumUBERON:000480179.15silver quality
caecumUBERON:000115378.60gold quality
colonUBERON:000115578.52gold quality
endometriumUBERON:000129578.51gold quality
male germ cellCL:000001577.64silver quality
spermCL:000001977.05silver quality
mouth mucosaUBERON:000372976.84gold quality
triceps brachiiUBERON:000150976.04gold quality
minor salivary glandUBERON:000183075.99gold quality
esophagusUBERON:000104375.49gold quality
kidneyUBERON:000211374.51gold quality
amniotic fluidUBERON:000017374.39gold quality
gluteal muscleUBERON:000200073.97gold quality
male germ line stem cell (sensu Vertebrata) in testisCL:0000089 ∩ UBERON:000047372.93gold quality
body of stomachUBERON:000116172.33gold quality
stomachUBERON:000094572.20gold quality
uterine cervixUBERON:000000272.15gold quality
saliva-secreting glandUBERON:000104472.06gold quality
urethraUBERON:000005771.93gold quality
islet of LangerhansUBERON:000000671.87gold quality
diaphragmUBERON:000110371.74gold quality
metanephrosUBERON:000008171.56gold quality
jejunumUBERON:000211570.74gold quality
primordial germ cell in gonadCL:0000670 ∩ UBERON:000099170.56gold quality
skin of abdomenUBERON:000141670.19gold quality
hair follicleUBERON:000207369.07gold quality
periodontal ligamentUBERON:000826669.07gold quality
tongueUBERON:000172368.60gold quality
endocervixUBERON:000045868.32gold quality
superior surface of tongueUBERON:000737168.16gold quality
cortex of kidneyUBERON:000122567.96gold quality
zone of skinUBERON:000001467.55gold quality
body of tongueUBERON:001187667.08gold quality
left testisUBERON:000453366.72gold quality
thymusUBERON:000237066.37gold quality
mammalian vulvaUBERON:000099766.36silver quality
skin of legUBERON:000151166.24gold quality
uterusUBERON:000099565.95gold quality
upper arm skinUBERON:000426365.36gold quality
oviduct epitheliumUBERON:000480465.32silver quality
cauda epididymisUBERON:000436065.01gold quality
testisUBERON:000047364.96gold quality
superficial temporal arteryUBERON:000161464.81gold quality
prostate glandUBERON:000236764.61gold quality
mucosa of stomachUBERON:000119964.57gold quality
quadriceps femorisUBERON:000137764.51gold quality
ectocervixUBERON:001224964.18gold quality
vastus lateralisUBERON:000137963.93gold quality
fundus of stomachUBERON:000116063.83gold quality
right testisUBERON:000453463.55gold quality
fallopian tubeUBERON:000388962.82gold quality
female reproductive systemUBERON:000047462.43gold quality
pylorusUBERON:000116662.38gold quality

Single-cell (SCXA)

Detected in 3 experiment(s), a significant marker in 2.

ExperimentMarker?Max mean expression
E-CURD-114yes61.62
E-MTAB-6386no18.05
E-ANND-3no0.00

HPA expression

RNA tissue specificity: Tissue enhanced

showing 60 of 155 HPA tissues / cells by nTPM:

Tissue / cellAxisnTPMProtein (IHC)
Skeletal muscletissue539.5medium
Tonguetissue291.8
Cerebral cortextissue229.0medium
Somatosensory cortextissue229.0
Prefrontal cortextissue219.6
Occipital cortextissue218.9
Motor cortextissue206.2
Hippocampal formationtissue200.7
Entorhinal cortextissue200.7
Temporal cortextissue193.0
Retrosplenial and cingulate cortextissue180.2
Frontal cortextissue173.1
Basal gangliatissue169.6high
Putamentissue158.6
Caudate putamentissue157.2
Insular cortextissue153.2
Retrosplenial cortextissue151.1
Postcentral gyrustissue144.4
Ventral forebraintissue128.2
Hippocampustissue114.7high
Heart muscletissue106.3high
Cerebellumtissue90.1high
Amygdalatissue89.5
Septumtissue88.5
Urinary bladdertissue69.6medium
Nucleus accumbenstissue63.1
Thalamustissue62.8
Midbraintissue53.8
Superior colliculitissue52.4
Locus coeruleustissue45.7
Ponstissue45.6
Colontissue40.8medium
Rectumtissue40.3medium
Smooth muscletissue39.8medium
Choroid plexustissue38.3
Hypothalamustissue37.4
Substantia nigratissue32.8
Esophagustissue32.3medium
Medulla oblongatatissue30.1
Stomach 1tissue29.6medium
Seminal vesicletissue28.8not detected
Olfactory bulbtissue28.6
Endometrium 1tissue26.5not detected
Spinal cordtissue24.0
Duodenumtissue23.9medium
Prostatetissue23.5not detected
Periaqueductal graytissue22.9
Small intestinetissue21.1medium
Esophagustissue20.4not detected
Corpus callosumtissue19.9
Epididymistissue16.8not detected
Adipose tissuetissue16.7not detected
Fallopian tubetissue15.8not detected
Vaginatissue15.7medium
Cervixtissue15.6
Cervixtissue14.4not detected
Tonsiltissue14.0medium
Gallbladdertissue13.4medium
Urinary bladdertissue13.2not detected
Adrenal glandtissue10.9low

Brain sub-regions (HPA Brain Atlas): detected in 380; highest nTPM — Dorsal hippocampus (185.5), Posterior cingulate cortex (165.3), Hippocampus, CA1 (149.6), Hippocampus, CA3 (146.4), Ventral hippocampus (139.2).

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

Targeting TMPRSS4 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific).

showing 30 of 71 miRNAs:

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-450A-1-3P100.0069.331837
HSA-MIR-3646100.0073.565283
HSA-MIR-10401-5P99.9965.79948
HSA-MIR-60799.9773.625593
HSA-MIR-426799.9666.532368
HSA-MIR-6721-5P99.9368.922981
HSA-MIR-367199.9073.043897
HSA-MIR-153-5P99.8973.866317
HSA-MIR-449299.8768.253611
HSA-MIR-4728-5P99.8569.394718
HSA-MIR-629-3P99.8567.991875
HSA-MIR-684499.8270.692423
HSA-MIR-6785-5P99.8268.684428
HSA-MIR-4799-5P99.8270.602663
HSA-MIR-6739-5P99.8067.872806
HSA-MIR-431999.7669.832586
HSA-MIR-6733-5P99.7467.942759
HSA-MIR-149-3P99.7268.223963
HSA-MIR-6752-3P99.7266.711587
HSA-MIR-378G99.7164.901106
HSA-MIR-6883-5P99.6968.053785
HSA-MIR-6512-3P99.6566.071468
HSA-MIR-6720-5P99.6566.221459
HSA-MIR-1212399.5271.792990
HSA-MIR-4677-3P99.4967.911246
HSA-MIR-1207-5P99.4969.112983
HSA-MIR-122B-5P99.4670.811457
HSA-MIR-391599.4568.491905
HSA-MIR-4796-5P99.3470.06810
HSA-MIR-664A-3P99.2271.082696

Functional genomics

gnomAD constraint: pLI 6.81e-11, LOEUF 0.94, missense Z 0.561 — population loss-of-function intolerance (pLI ≥ 0.9 = LoF-intolerant; lower LOEUF = more constrained). gnomAD

Regional missense constraint (gnomAD RMC): no regional variation along ENST00000437212 — one region, missense o/e 0.98.

Literature-anchored findings (GeneRIF, showing 40)

  • TMPRSS4 plays a role in invasion, metastasis, migration and adhesion in cancer cells. TMPRSS4 may contribute to tumor cell invasion and metastasis by promoting an epithelial-mesenchymal transition(EMT) through the strong SIP1/ZEB2 induction. (PMID:17968309)
  • The authors provide evidence that TMPRSS2 and TMPRSS4 activate the 1918 HA by cleavage and therefore may promote viral spread in lung tissue. (PMID:19158246)
  • TMPRSS4 expression was significantly higher in human colorectal cancer tissues from advanced stages than in that of early stage. (PMID:20118200)
  • RNAi-mediated knockdown of TMPRSS2 and TMPRSS4 in Caco-2 cells, which released fully infectious virus without trypsin treatment, markedly reduced the spread of influenza virus, demonstrating that these proteases were responsible for activation of HA. (PMID:20631123)
  • Overexpression of TMPRSS4 has a critical role in radiation-induced long-term dissemination and metastasis of residual HCC by facilitating EMT. (PMID:21637307)
  • Kaplan-Meier curves demonstrated that high levels of TMPRSS4 were significantly associated (P=0.017) with reduced overall survival in the patients with SCC histology, whereas no correlation was found for the AC histology (PMID:22067904)
  • results demonstrate overexpression of TMPRSS4 in non-small cell lung carcinoma at both the mRNA and protein levels. In addition, our findings suggest that expression of TMPRSS4 in the tumor microenvironment is regulated by hypoxia. (PMID:22692880)
  • Progression and metastatic potential of several cancers is concordant with an increased expression of TMPRSS4. (PMID:22944691)
  • TMPRSS4 expression is a putative biological marker for breast cancer and is an indicator of poor prognosis. (PMID:23420063)
  • Expression of TMPRSS4 in gastric cancer is significantly associated with lymph node and distant metastasis, high Erk1 expression, and poor prognosis. (PMID:23922976)
  • A mutation in the serine protease TMPRSS4 in a novel pediatric neurodegenerative disorder (PMID:23957953)
  • TMPRSS4 induced the transcription of uPA gene through activating the transcription factors Sp1, Sp3, and AP-1 in a JNK-dependent manner and that the induction of uPA was required for TMPRSS4-mediated cancer cell invasion. (PMID:23978400)
  • High TMPRSS4 expression is associated with cervical squamous cell carcinoma. (PMID:24012692)
  • High expression of TMPRSS4 was significantly associated with advanced TNM stage. (PMID:24072509)
  • TMPRSS4 was an independent predictor of OS and DFS. (PMID:24132607)
  • Our data suggest that TMPRSS4 positivity is associated with GC invasion and lymph node metastasis. We propose TMPRSS4 expression as an indicator of poor prognosis in GC patients (PMID:24299317)
  • TMPRSS4 was associated with CRC stage and regulated the proliferation and self-renewal ability of colon cancer cells; TMRPSS4 was involved in the development and progression of CRC. (PMID:24335200)
  • TMPRSS4 directly converted inactive pro-uPA into the active form through its proteolytic activity. Conditioned medium from cells overexpressing TMPRSS4 showed that the active TMPRSS4 protease domain is released and is associated with the plasma membrane. (PMID:24434139)
  • We have demonstrated for the first time a new molecular pathway that connects TMPRSS4 and integrin alpha5 through miR-205 to regulate cancer cell invasion and metastasis (PMID:24434435)
  • increased TMPRSS4 expression was an independent predictor of poor prognosis for overall survival in gallbladder cancer. patients. (PMID:24532432)
  • On the basis of this information and the structural characteristics of this druggable protease, we suggest that TMPRSS4 could be a novel potential therapeutic target in solid tumours. (PMID:25203520)
  • TMPRSS4 is overexpressed in thyroid cancer and TMPRSS4-CREB signaling is needed to sustain thyroid cancer cell proliferation. (PMID:25244400)
  • TMPRSS4 is upregulated by silencing of TFPI-2 through aberrant DNA methylation and contributes to oncogenesis in non-small cell lung cancer. (PMID:25414083)
  • In prostate cancer, high TMPRSS4 expression was significantly associated with advanced tumor stage and lymphatic metastasis. (PMID:25550850)
  • The increase of TMPRSS4 expression may be a key event for HCC progression and may be regarded as a potential prognostic marker for HCC. (PMID:26190376)
  • suggesting that TMPRSS4 is associated with a cancer stem cells phenotype in patients’ tumors (PMID:26546046)
  • TMPRSS4 expression is associated with postoperative recurrence. In addition, the current survival curves demonstrated that TMPRSS4 expression is associated with statistically significant differences in survival among patients with lung adenocarcinoma. (PMID:26722035)
  • TMPRSS4 is a novel independent prognostic biomarker regulated by epigenetic changes in lung squamous cell carcinomas (PMID:26989022)
  • High TMPRSS4 expression is associated with pancreatic adenocarcinoma. (PMID:26993610)
  • We conclude that TMPRSS4 overexpression in solid tumors is associated with patients’ poor prognosis. TMPRSS4 could be a valuable prognosis biomarker or a promising therapeutic target of solid tumor. (PMID:27344186)
  • TMPRSS4 modulates both invasion and proliferation via Slug and cyclin D1, which is a previously unrecognized pathway that may regulate metastasis and cancer progression (PMID:27385093)
  • TMPRSS4 overexpression promoted the proliferation, invasion and migration of breast cancer cells by possibly inducing epithelial-mesenchymal transition (PMID:28259959)
  • we demonstrated a mechanistic cascade of TMPRSS4 up-regulating STAT3 activation and subsequent TWIST1 expression, leading to prostate cancer migration. (PMID:28466252)
  • These results revealed that CLDN1 contributed to cancer stem cell features of hepatocellular carcinoma, which was altered by TMPRSS4 expression via ERK1/2 signaling pathway, providing promising targets for novel specific therapies. (PMID:28651932)
  • TMPRSS4 protein expression in esophageal carcinoma was correlated with patient demographic characteristics, tumor type, high TNM stages and overall survival. (PMID:29254316)
  • Data suggest that miR-551b-3p functions as a tumour suppressor gene in gastric cancer, and its function is regulated by long noncoding RNAs (lncRNAs) SMARCC2/miR-551b-3p/transmembrane protease, serine 4 protein (TMPRSS4) axis. (PMID:29337109)
  • TMPRSS4 is overexpressed in Idiopathic pulmonary fibrosis lungs. (PMID:29529050)
  • The miR125a5p/TMPRSS4/NFkappaB axis may thus provide novel insight into the pathogenic mechanisms of lung adenocarcinoma and may be used in the development of novel treatment strategies for lung adenocarcinoma . (PMID:29750426)
  • The authors demonstrated that TMPRSS4 expression was significantly upregulated in fine needle aspiration biopsy specimens from Papillary thyroid cancer patients compared with benign nodules, and appeared to be a helpful diagnostic marker for distinguishing malignant from benign nodules. (PMID:30518486)
  • TMPRSS4 silencing in breast cancer reduces cells proliferation by promoting cell cycle arrest (PMID:31244309)

Cross-species orthologs

14 orthologs

OrganismSymbolGene ID
danio_reriohpENSDARG00000051890
mus_musculusTmprss4ENSMUSG00000032091
rattus_norvegicusTmprss4ENSRNOG00000026650
drosophila_melanogasterCG9673FBGN0030775
drosophila_melanogasterCG4477FBGN0035971
drosophila_melanogasterCG17404FBGN0038001
drosophila_melanogasterCG12256FBGN0038002
drosophila_melanogasterCG3916FBGN0038003
drosophila_melanogasterCG17477FBGN0038479
drosophila_melanogasterCG4053FBGN0038482
drosophila_melanogasterCG31269FBGN0051269
drosophila_melanogasterCG32808FBGN0052808
drosophila_melanogasterPhae2FBGN0263235
drosophila_melanogasterSend2FBGN0264253

Paralogs (12): PRSS54 (ENSG00000103023), KLK14 (ENSG00000129437), KLK8 (ENSG00000129455), KLK3 (ENSG00000142515), KLK1 (ENSG00000167748), KLK4 (ENSG00000167749), KLK2 (ENSG00000167751), KLK5 (ENSG00000167754), KLK11 (ENSG00000167757), KLK7 (ENSG00000169035), KLK12 (ENSG00000186474), PRSS58 (ENSG00000258223)

Additional cross-species homologs

Sequence homologs in species beyond Ensembl Compara’s model organisms, by Diamond local protein alignment (% sequence identity; best hit per species). Lower-identity rows are more distant homologs. The matched accessions’ gene symbols aren’t in biobtree yet, so each row shows the UniProt accession.

OrganismUniProtIdentityMethod
Phytophthora sojae strain P6497G5AE35100.0%Diamond
Phytophthora sojaeQ945T8100.0%Diamond
Pongo abeliiQ5R5E899.3%Diamond
Pan troglodytesQ5G27199.2%Diamond
Nomascus leucogenysQ5G26898.5%Diamond
Gorilla gorilla gorillaQ5G27098.5%Diamond
Trachypithecus phayreiQ5G26698.3%Diamond
Macaca mulattaQ5G26798.3%Diamond
Pongo pygmaeusQ5G26996.7%Diamond
Manduca sextaP3504596.1%Diamond
Saguinus labiatusQ5G26595.5%Diamond
Drosophila erectaP5462794.9%Diamond
Capra hircusQ2831592.7%Diamond
Canis lupus familiarisP0481387.1%Diamond
Bos taurusP9807285.9%Diamond
Sus scrofaP9807485.9%Diamond
Mesocricetus auratusP1515684.7%Diamond
Streptomyces exfoliatusP8042082.7%Diamond
Euroglyphus mayneiO9737082.3%Diamond
Dermatophagoides farinaeP4927582.3%Diamond
Dermatophagoides pteronyssinusP3967581.6%Diamond
Streptomyces griseusP0077581.1%Diamond
Lonomia achelousP2360479.4%Diamond
Anopheles gambiaeP3503578.3%Diamond
Oryctolagus cuniculusP4803876.7%Diamond
Ovis ariesQ9GL1076.5%Diamond

Genomic neighbors (locus context)

Genes flanking this one on the chromosome (NCBI/Entrez gene neighborhood). Positional context only — some neighbors share regulatory elements (bidirectional promoters, antisense/overlapping transcripts), but chromosomal adjacency is not itself a functional relationship (see Interactions for that).

SymbolTypeEntrez
IL10RAprotein-coding3587
SCN4Bprotein-coding6330
TMPRSS13protein-coding84000
SMIM35protein-coding100526771
SCN2Bprotein-coding6327
JAMLprotein-coding120425
FXYD6-FXYD2protein-coding100533181
FXYD6-AS1ncRNA123706543
FXYD6protein-coding53826
MPZL3protein-coding196264

Protein

Protein identifiers

Transmembrane protease serine 4 — Q9NRS4 (reviewed: Q9NRS4)

Alternative names: Channel-activating protease 2, Membrane-type serine protease 2

All UniProt accessions (10): Q9NRS4, A0A087WTU6, A0AAQ5BHV3, A0AAQ5BHV4, E5RIH1, E5RJR8, E7ESG9, G3V124, H0YAX8, H0YBM5

UniProt curated annotations — full annotation on UniProt →

Function. Plasma membrane-anchored serine protease that directly induces processing of pro-uPA/PLAU into the active form through proteolytic activity. Seems to be capable of activating ENaC. (Microbial infection) In gut epithelial cells, facilitates human coronavirus SARS-CoV-2 infection through, at least, the cleavage of coronavirus spike glycoproteins which activates the glycoprotein for host cell entry.

Subcellular location. Cell membrane Secreted.

Tissue specificity. High levels in pancreatic, gastric, colorectal and ampullary cancer. Very weak expression in normal gastrointestinal and urogenital tract. Coexpressed with ACE2 within mature enterocytes.

Post-translational modifications. Proteolytically processed; probably by an autocatalytic mechanism.

Similarity. Belongs to the peptidase S1 family.

Isoforms (4)

UniProt IDNamesCanonical?
Q9NRS4-11yes
Q9NRS4-22
Q9NRS4-33
Q9NRS4-44

RefSeq proteins (6): NP_001077416, NP_001167022, NP_001167023, NP_001277023, NP_001277025, NP_063947* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR001190SRCRDomain
IPR001254Trypsin_domDomain
IPR001314Peptidase_S1AFamily
IPR002172LDrepeatLR_classA_rptRepeat
IPR009003Peptidase_S1_PAHomologous_superfamily
IPR018114TRYPSIN_HISActive_site
IPR033116TRYPSIN_SERActive_site
IPR036055LDL_receptor-like_sfHomologous_superfamily
IPR036772SRCR-like_dom_sfHomologous_superfamily
IPR043504

Pfam: PF00089, PF15494

UniProt features (31 total): disulfide bond 8, active site 3, splice variant 3, sequence variant 3, domain 3, chain 2, glycosylation site 2, topological domain 2, mutagenesis site 2, site 1, transmembrane region 1, sequence conflict 1

Structure

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q9NRS4-F188.010.67

Human Protein Atlas

Protein class: Predicted intracellular proteins, Cancer-related genes, Mutated cancer genes

Protein evidence: Evidence at protein level

Subcellular location (HPA, imaging): cytosol; nucleoplasm; plasma membrane

Antibody reliability (HPA): IH enhanced · IF approved

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Catalytic / active sites (4)

PositionRole
387charge relay system
204–205cleavage
245charge relay system
290charge relay system

Disulfide bonds (8)

TypePositions
Disulfide bond64–83, 77–92, 127–183, 140–193, 196–310, 230–246, 356–372, 383–410

Glycosylation sites (2)

TypePositions
N-linked (glcnac…) asparagine130, 178

Mutagenesis-validated functional residues (2)

PositionPhenotype
290abolishes protease activity.
387abolishes protease activity.

Function

Pathways and Gene Ontology

Reactome pathways

0 curated (TAS) of 0; 0 disease pathways. Curated-first; evidence = TAS (manually curated) vs IEA (electronic inference).

MSigDB gene sets: 449 (showing top): WAMUNYOKOLI_OVARIAN_CANCER_LMP_DN, TGGTGCT_MIR29A_MIR29B_MIR29C, MODULE_52, YAGI_AML_WITH_INV_16_TRANSLOCATION, GOBP_ESTABLISHMENT_OR_MAINTENANCE_OF_CELL_POLARITY, GOBP_SENSORY_PERCEPTION_OF_MECHANICAL_STIMULUS, GOCC_SECRETORY_GRANULE, BHATI_G2M_ARREST_BY_2METHOXYESTRADIOL_DN, GOZGIT_ESR1_TARGETS_DN, ASTON_MAJOR_DEPRESSIVE_DISORDER_DN, GOBP_GROWTH, GOBP_POSITIVE_REGULATION_OF_LYASE_ACTIVITY, FRASOR_RESPONSE_TO_SERM_OR_FULVESTRANT_DN, PATIL_LIVER_CANCER, SENESE_HDAC1_AND_HDAC2_TARGETS_DN

GO Biological Process (5): proteolysis (GO:0006508), regulation of gene expression (GO:0010468), protein processing (GO:0016485), negative regulation of growth rate (GO:0045967), positive regulation of viral entry into host cell (GO:0046598)

GO Molecular Function (5): serine-type endopeptidase activity (GO:0004252), serine-type peptidase activity (GO:0008236), protein binding (GO:0005515), peptidase activity (GO:0008233), hydrolase activity (GO:0016787)

GO Cellular Component (6): plasma membrane (GO:0005886), membrane (GO:0016020), secretory granule (GO:0030141), extracellular region (GO:0005576), cytoplasm (GO:0005737), endomembrane system (GO:0012505)

GO top-level categories

27 GO namespaces:

CategoryTerms
cellular anatomical structure4
protein metabolic process1
gene expression1
regulation of macromolecule biosynthetic process1
proteolysis1
protein maturation1
regulation of growth rate1
negative regulation of growth1
regulation of viral entry into host cell1
symbiont entry into host cell1
positive regulation by symbiont of entry into host1
positive regulation of viral life cycle1
endopeptidase activity1
serine-type peptidase activity1
peptidase activity1
serine hydrolase activity1
binding1
hydrolase activity1
catalytic activity, acting on a protein1
catalytic activity1
membrane1
cell periphery1
endomembrane system1
secretory vesicle1
intracellular anatomical structure1
vacuole1
plasma membrane1

Experimentally-supported GO annotations

GO terms backed by direct experimental evidence (ECO experimental codes) — 7 of 17 annotations. The rest are phylogenetic / computational / electronic (IEA).

7 experimentally-supported GO terms:

GO termNSEvidence
negative regulation of growth rateBPdirect assay
positive regulation of viral entry into host cellBPdirect assay
protein processingBPdirect assay
proteolysisBPdirect assay
regulation of gene expressionBPdirect assay
secretory granuleCCdirect assay
serine-type peptidase activityMFdirect assay

Protein interactions and networks

STRING

showing 15 of 978 interactions by confidence (×1000):

Protein AProtein BPartner UniProtScore
TMPRSS4ACE2Q9BYF1717
TMPRSS4MYO15AQ9UKN7700
TMPRSS4FURINP09958683
TMPRSS4TMC1Q8TDI8677
TMPRSS4OTOFQ9HC10653
TMPRSS4SLC26A4O43511652
TMPRSS4GJB2P29033651
TMPRSS4CDH23Q9H251621
TMPRSS4ZFYVE9O95405618
TMPRSS4CTSLP07711602
TMPRSS4OTOAQ7RTW8592
TMPRSS4LOXHD1Q8IVV2579
TMPRSS4MYO7AP78427571
TMPRSS4STRCQ7RTU9571
TMPRSS4CTSSP25774559

IntAct

Human interaction partners of TMPRSS4 in IntAct, one row per partner (best MIscore; records = supporting IntAct interaction records).

12 partners by confidence:

PartnerInteraction typeMIscoreRecords
BNIP3Lphysical association0.5603
CLRN1physical association0.5603
CSNK1Dphysical association0.5603
ERVFRD-1physical association0.5603
FAM209Aphysical association0.5603
FNDC9physical association0.5603
GPX8physical association0.5603
KASH5physical association0.5603
RASGRP4physical association0.5603
SIGLEC12physical association0.5603
SUSD3physical association0.5603
TMEM79physical association0.5603

BioGRID (371 interactions; top human partners by supporting records): MET (Affinity Capture-MS; 3 records), ADAM15 (Affinity Capture-MS; 2 records), AFG3L2 (Affinity Capture-MS; 2 records), AIF1L (Affinity Capture-MS; 2 records), APP (Affinity Capture-MS; 2 records), ATP1B3 (Affinity Capture-MS; 2 records), AUP1 (Affinity Capture-MS; 2 records), B4GAT1 (Affinity Capture-MS; 2 records), BSG (Affinity Capture-MS; 2 records), C19orf70 (Affinity Capture-MS; 2 records), CDH2 (Affinity Capture-MS; 2 records), CHPF2 (Affinity Capture-MS; 2 records), CLGN (Affinity Capture-MS; 2 records), CNNM4 (Affinity Capture-MS; 2 records), COCH (Affinity Capture-MS; 2 records)

SIGNOR signaling

showing 1 of 2 signaling interactions:

AEffectBMechanism
TMPRSS4“up-regulates activity”Scleavage

Disease & clinical

Genetic variants

Variant evidence for TMPRSS4: 178 ClinVar records (4 pathogenic / likely pathogenic); 5 GWAS associations. Per-variant detail is on Sugi Variant.

ClinVar

178 variants total. Per-class counts are floors (≥ shown; pagination cap):

ClassificationCount (floor)
Pathogenic3
Likely pathogenic1
Uncertain significance131
Likely benign12
Benign1

Top pathogenic / likely-pathogenic (4)

Showing all 4 pathogenic / likely-pathogenic ClinVar records, ranked by ClinVar review status (expert panel → multiple submitters → single submitter), then by number of submitting labs.

Variant IDHGVSClassificationReviewSubmitters
4845338NM_006366.3(CAP2):c.870del (p.Ser291fs)Likely pathogeniccriteria provided, single submitter1
2574649NM_006366.3(CAP2):c.636+1G>APathogenicno assertion criteria provided1
2574650NM_006366.3(CAP2):c.948T>G (p.Tyr316Ter)Pathogenicno assertion criteria provided1
2574651NM_006366.3(CAP2):c.1288del (p.Cys430fs)Pathogenicno assertion criteria provided1

Per-variant reference — Sugi Variant

Explore TMPRSS4’s pathogenic and likely-pathogenic variants individually — each with its ClinVar classification and conditions, applied ACMG criteria (ClinGen expert panel, where curated), the calibrated in-silico predictors (AlphaMissense, REVEL, SaProt, conservation), gnomAD frequency, and the predictor-disagreement QC signal — on Sugi Variant.

SpliceAI

Top 10 splice-impact sites by Δscore (adjacent positions with the same effect merged into one range; 31 predictions of 2,546):

Position(s)EffectΔscoreSites
11:118091957donor_gain1.0000
11:118103089acceptor_gain1.0000
11:118103254–118103255donor_loss1.00005
11:118104689–118104690acceptor_loss1.00006
11:118104821–118104822donor_loss1.00004
11:118107762acceptor_gain1.0000
11:118111901–118111902donor_loss1.00005
11:118113436–118113437donor_loss1.00005
6:17393747–17393748donor_loss1.00002
6:17507613acceptor_gain1.0000

AlphaMissense

465 missense substitutions predicted likely pathogenic (of 2,884 scored), across 136 residues. Top 20 hotspot residues, ranked by the number of likely-pathogenic substitutions (of those reachable by a single-nucleotide change), then by mean score:

ResidueLikely-pathogenic substitutionsMean am_pathogenicityMax am_pathogenicity
D8880.8060.933
M37080.6850.825
C8370.9460.977
C7770.9430.983
C6470.9060.956
C9270.9020.945
C14070.8900.934
W42870.8880.976
W21870.8830.969
C19370.8800.932
C35670.8800.953
C12770.8740.922
C31070.8730.917
C37270.8650.946
C18370.8510.903
C24670.8440.902
W32970.8410.949
W25670.8210.941
C23070.8090.880
W23970.7880.919

HPA cancer prognostics

RNA cancer specificity: Low cancer specificity

Human Protein Atlas survival analysis — favorable = higher expression predicts better survival.

3 prognostic cancer types:

CancerPrognosticp-value
Kidney Renal Clear Cell Carcinoma (TCGA)favorable7.39e-06
Pancreatic Adenocarcinoma (TCGA)unfavorable0.000137
Cervical Squamous Cell Carcinoma and Endocervical Adenocarcinoma (TCGA)favorable0.000726

Disease associations

OMIM: gene MIM:606565 | disease phenotypes: MIM:620462

GenCC curated gene-disease

3 curated gene-disease records:

DiseaseClassificationInheritanceRecords
cardiomyopathy, dilated, 2IModerateAutosomal recessive
autosomal recessive cerebral atrophySupportiveAutosomal recessive
familial isolated dilated cardiomyopathySupportiveAutosomal dominant

Mondo (3): cardiomyopathy, dilated, 2I (MONDO:0957545), autosomal recessive cerebral atrophy (MONDO:0018218), (MONDO:0015470)

HPO phenotypes

18 phenotypes (HPO-id order):

HPOTerm
HP:0000007Autosomal recessive inheritance
HP:0000407Sensorineural hearing impairment
HP:0000969Edema
HP:0001635Congestive heart failure
HP:0001644Dilated cardiomyopathy
HP:0001727Thromboembolic stroke
HP:0002875Exertional dyspnea
HP:0003198Myopathy
HP:0003457EMG abnormality
HP:0003621Juvenile onset
HP:0004755Supraventricular tachycardia
HP:0011463Childhood onset
HP:0011675Arrhythmia
HP:0012378Fatigue
HP:0012666Severely reduced left ventricular ejection fraction
HP:0012764Orthopnea
HP:0025169Left ventricular systolic dysfunction
HP:0100578Lipoatrophy

GWAS associations

5 associations:

StudyTraitp-value
GCST90014033_97Haemorrhoidal disease2e-12
GCST005171_43QT interval3e-7
GCST000175_16Height7e-7
GCST002616_3Mitochondrial DNA levels2e-6
GCST002868_6Response to serotonin reuptake inhibitors in major depressive disorder2e-6

EFO canonical traits (from GWAS)

3 canonical traits:

EFO IDTrait name
EFO:0006312mitochondrial DNA measurement
EFO:0005658response to selective serotonin reuptake inhibitor
EFO:0004682QT interval

Drugs & pharmacology

Drug and pharmacology data

Is drug target: yes

ChEMBL targets (2): CHEMBL2331048 (SINGLE PROTEIN), CHEMBL4742321 (PROTEIN-PROTEIN INTERACTION)

Molecules with ChEMBL bioactivity

Phase ≥1, by development phase (incl. off-target/promiscuous compounds). Patent mentions across the top 20 by phase: 482 (via chembl_molecule»patent_compound — counts attach to the compound, not the gene–compound relationship, so off-target/promiscuous molecules can dominate).

1 molecules by phase:

MoleculeNamePhasePatents
CHEMBL536151IMD-03541482

PharmGKB: 1 entry (CPIC guideline: no)

Binding affinities (BindingDB)

30 measured of 41 human assays (41 total across all organisms); most potent 30 below. Values come from heterogeneous assays and are not directly comparable.

LigandMeasureValue
CHEMBL2179173IC5029 nM
CHEMBL2088014IC5038 nM
CHEMBL2338695IC5058 nM
CHEMBL461542IC5077 nM
MMV665807IC5091 nM
CHEMBL2313115IC50236 nM
TCMDC-125465IC50250 nM
CHEMBL2178702IC50323 nM
CHEMBL2338686IC50341 nM
CHEMBL2313119IC50755 nM
CHEMBL2338696IC501140 nM
CHEMBL2313134IC501530 nM
CHEMBL2313116IC501660 nM
CHEMBL2313122IC502530 nM
CHEMBL2338685IC506000 nM
CHEMBL2313097IC5010000 nM
CHEMBL2338684IC5012000 nM
CHEMBL2338683IC5012000 nM
CHEMBL2313117IC5013000 nM
CHEMBL2313136IC5013000 nM
CHEMBL2313095IC5016000 nM
CHEMBL2338697IC5019000 nM
CHEMBL2313138IC5020000 nM
CHEMBL2313080IC5028000 nM
CHEMBL2313089IC5030000 nM
CHEMBL2313088IC5035000 nM
CHEMBL1892375IC5050000 nM
CHEMBL2338689IC5080000 nM
CHEMBL2338694IC5085000 nM
CHEMBL1256178IC50250000 nM

ChEMBL bioactivities

2 potent at pChembl≥5 of 29 total, top 2 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).

pChemblTypeValueUnitMolecule
5.22IC506000nMCHEMBL2338685
5.00IC501e+04nMCHEMBL2313097

PubChem BioAssay actives

2 with measured affinity, of 47 total; 2 most potent distinct compounds. Largely complementary to BindingDB; screening values are coarse (µM, 4 dp), so sub-nM hits tie at the floor.

CompoundAssayTypeValueUnit
N-[4-bromo-3,5-bis(trifluoromethyl)phenyl]-5-chloro-2-hydroxybenzamide730377: Inhibition of N-terminal His6-tagged recombinant TMPRSS4 (unknown origin) fused with enterokinase cleavage sequence DYKDDDGDYKDDDDK expressed in Escherichia coli BL21 (DE3) using Z-Phe-Arg-7-amido-4-methylcoumarin hydrochloride as substrate by fluorometric analysisic506.0000uM
5-chloro-2-hydroxy-N-[4-methyl-3,5-bis(trifluoromethyl)phenyl]benzamide730377: Inhibition of N-terminal His6-tagged recombinant TMPRSS4 (unknown origin) fused with enterokinase cleavage sequence DYKDDDGDYKDDDDK expressed in Escherichia coli BL21 (DE3) using Z-Phe-Arg-7-amido-4-methylcoumarin hydrochloride as substrate by fluorometric analysisic5010.0000uM

CTD chemical–gene interactions

20 total (human), top 20 by PubMed support.

ChemicalActions (top 5)PubMed papers
Estradioldecreases expression, affects cotreatment, increases expression3
Particulate Matterincreases abundance, increases expression2
beta-lapachoneincreases expression1
butyraldehydeincreases expression1
fipronilincreases expression1
CGP 52608affects binding, increases reaction1
rofecoxibincreases expression1
pinostrobinincreases phosphorylation1
prothioconazoledecreases expression1
Air Pollutantsincreases abundance, increases expression1
Benzo(a)pyreneaffects methylation, decreases methylation1
Ethinyl Estradiolaffects expression1
Ibuprofenaffects expression1
Nickelincreases expression1
Tetrachlorodibenzodioxinaffects cotreatment, increases expression1
Tobacco Smoke Pollutionincreases expression1
Tretinoinincreases expression1
Valproic Acidincreases expression1
Okadaic Acidincreases expression1
Genisteinaffects expression1

ChEMBL screening assays

21 unique, capped per target: 21 binding

Representative assays (with source publication via chembl_document):

Assay IDTypeDescriptionSource paper
CHEMBL2343322BindingInhibition of TMPRSS4 in human SW480 cells assessed as inhibition of cell invasion at 0.1 uM relative to controlDiscovery of novel 2-hydroxydiarylamide derivatives as TMPRSS4 inhibitors. — *Bioorg Med Chem Lett*

Clinical trials (associated diseases)

Via MONDO — disease-level, not drug-specific.

Predicted chemistry — Sugi Predict

The predicted patent-compound landscape for TMPRSS4 across ~30M SureChEMBL compounds — explore on Sugi Predict.