Seroatlas · Human Serome Atlas

PTPN4

Tyrosine-protein phosphatase non-receptor type 4

Also known as: PTN4_HUMAN, PTPMEG

Cross-references: UniProt · Ensembl · Human Protein Atlas · GeneCards · NCBI Gene

Protein identityUniProt · HPA

UniProt accession
P29074
Gene
PTPN4
Ensembl
ENSG00000088179
Chromosome
2
Canonical length
926 aa
Protein class
Enzymes, Plasma proteins, Predicted intracellular proteins
Subcellular location
Nucleoplasm,Plasma membrane,Cytosol

OverviewNCBI Gene

The protein encoded by this gene is a member of the protein tyrosine phosphatase (PTP) family. PTPs are known to be signaling molecules that regulate a variety of cellular processes including cell growth, differentiation, mitotic cycle, and oncogenic transformation. This protein contains a C-terminal PTP domain and an N-terminal domain homologous to the band 4.1 superfamily of cytoskeletal-associated proteins. This PTP has been shown to interact with glutamate receptor delta 2 and epsilon subunits, and is thought to play a role in signalling downstream of the glutamate receptors through tyrosine dephosphorylation. [provided by RefSeq, Jul 2008]

Canonical amino-acid sequenceUniProt

926 residues, UniProt reviewed canonical sequence.

>P29074|PTPN4
     1  MTSRFRLPAG RTYNVRASEL ARDRQHTEVV CNILLLDNTV QAFKVNKHDQ GQVLLDVVFK
    61  HLDLTEQDYF GLQLADDSTD NPRWLDPNKP IRKQLKRGSP YSLNFRVKFF VSDPNKLQEE
   121  YTRYQYFLQI KQDILTGRLP CPSNTAALLA SFAVQSELGD YDQSENLSGY LSDYSFIPNQ
   181  PQDFEKEIAK LHQQHIGLSP AEAEFNYLNT ARTLELYGVE FHYARDQSNN EIMIGVMSGG
   241  ILIYKNRVRM NTFPWLKIVK ISFKCKQFFI QLRKELHESR ETLLGFNMVN YRACKNLWKA
   301  CVEHHTFFRL DRPLPPQKNF FAHYFTLGSK FRYCGRTEVQ SVQYGKEKAN KDRVFARSPS
   361  KPLARKLMDW EVVSRNSISD DRLETQSLPS RSPPGTPNHR NSTFTQEGTR LRPSSVGHLV
   421  DHMVHTSPSE VFVNQRSPSS TQANSIVLES SPSQETPGDG KPPALPPKQS KKNSWNQIHY
   481  SHSQQDLESH INETFDIPSS PEKPTPNGGI PHDNLVLIRM KPDENGRFGF NVKGGYDQKM
   541  PVIVSRVAPG TPADLCVPRL NEGDQVVLIN GRDIAEHTHD QVVLFIKASC ERHSGELMLL
   601  VRPNAVYDVV EEKLENEPDF QYIPEKAPLD SVHQDDHSLR ESMIQLAEGL ITGTVLTQFD
   661  QLYRKKPGMT MSCAKLPQNI SKNRYRDISP YDATRVILKG NEDYINANYI NMEIPSSSII
   721  NQYIACQGPL PHTCTDFWQM TWEQGSSMVV MLTTQVERGR VKCHQYWPEP TGSSSYGCYQ
   781  VTCHSEEGNT AYIFRKMTLF NQEKNESRPL TQIQYIAWPD HGVPDDSSDF LDFVCHVRNK
   841  RAGKEEPVVV HCSAGIGRTG VLITMETAMC LIECNQPVYP LDIVRTMRDQ RAMMIQTPSQ
   901  YRFVCEAILK VYEEGFVKPL TTSTNK

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against PTPN4 can act on the native protein depends on physical access: surface and secreted proteins are reachable by circulating antibodies, intracellular proteins usually are not.

Antibody reachability
Cell surface
Secreted
No
Transmembrane segments
0
Mean surface accessibility (rSASA)
0.36
Highest tissue expression
13 nTPM

Expression across tissuesHPA

Tissue

  • cerebellum: 13 nTPM
  • thyroid gland: 13 nTPM
  • tongue: 12 nTPM
  • retina: 11 nTPM
  • cerebral cortex: 9.1 nTPM
  • skeletal muscle: 7.5 nTPM

Single-cell type

  • retinal horizontal cells: 659 nCPM
  • somatotrophs: 492 nCPM
  • sertoli cells: 464 nCPM
  • distal convoluted tubule cells: 385 nCPM
  • nk-cells: 342 nCPM
  • loop of henle epithelial cells: 336 nCPM

Immune cell

  • gdT-cell: 35 nTPM
  • MAIT T-cell: 28 nTPM
  • memory CD8 T-cell: 28 nTPM
  • NK-cell: 25 nTPM
  • naive CD8 T-cell: 19 nTPM
  • memory CD4 T-cell: 17 nTPM

Brain region

  • cerebellum: 113 nTPM
  • thalamus: 59 nTPM
  • cerebral cortex: 56 nTPM
  • midbrain: 47 nTPM
  • white matter: 47 nTPM
  • basal ganglia: 40 nTPM

DiseaseUniProt · ClinVar · IEDB · PubMed

Four sources answering four different questions about PTPN4.

Disease | GeneticClinVar

12 pathogenic / likely-pathogenic of 183 ClinVar records.

Conditions with pathogenic or likely-pathogenic variants.

Genetic constraint and essentialitygnomAD · DepMap

Does the body need this protein intact? Low LOEUF or a strong DepMap dependency means loss or blockade of the protein is likely to be felt.

gnomAD LOEUF (loss-of-function intolerance)
0.28
gnomAD pLI
1
gnomAD missense Z
2.65
DepMap mean gene effect
-0.1
DepMap dependency class
selective

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 5% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

Molecular functions

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of PTPN4 in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads PTPN4 as an antibody target. Whether an autoantibody or antibody against PTPN4 could matter depends on whether native PTPN4 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

PTPN4 is annotated at the cell surface, where native PTPN4 is exposed to circulating antibodies and is a prime autoantibody target that could block, deplete, or overstimulate it.

Annotation status

The present source text does not explicitly label PTPN4 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Canonical record: https://seroatlas.com/gene/PTPN4. Study-independent annotations aggregated from UniProt, Human Protein Atlas, PubMed, IEDB, Pfam, InterPro, Gene Ontology, AlphaFold, gnomAD, DepMap, ClinVar, TCGA. Catalog release seroatlas-reviewed-human-uniprot-20260313.

Seroatlas is the reference for exploring autoantibody and antibody serology at the human-protein level: the autoreactome and human serome, multiplex serology (HuProt, HuScan, VirScan, PhIP-Seq).

© 2026 · Seroatlas, Discover Oregon LLC · Terms of use

Loading the interactive Seroatlas protein explorer...