Human Gene PTPRZ1 (ENST00000449182.1) from GENCODE V41
  Description: Homo sapiens protein tyrosine phosphatase receptor type Z1 (PTPRZ1), transcript variant 3, mRNA. (from RefSeq NM_001206839)
RefSeq Summary (NM_001206839): This gene encodes a member of the receptor protein tyrosine phosphatase family. Expression of this gene is restricted to the central nervous system (CNS), and it may be involved in the regulation of specific developmental processes in the CNS. Alternatively spliced transcript variants encoding different isoforms have been described for this gene. [provided by RefSeq, May 2011].
Gencode Transcript: ENST00000449182.1
Gencode Gene: ENSG00000106278.12
Transcript (Including UTRs)
   Position: hg38 chr7:121,873,361-122,061,361 Size: 188,001 Total Exon Count: 29 Strand: +
Coding Region
   Position: hg38 chr7:121,873,500-122,061,220 Size: 187,721 Coding Exon Count: 29 

Page IndexSequence and LinksUniProtKB CommentsMalaCardsCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesMethods
Data last updated at UCSC: 2022-05-14 18:57:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr7:121,873,361-122,061,361)mRNA (may differ from genome)Protein (1448 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMGImyGene2neXtProt
OMIMPubMedReactomeUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: PTPRZ_HUMAN
DESCRIPTION: RecName: Full=Receptor-type tyrosine-protein phosphatase zeta; Short=R-PTP-zeta; EC=3.1.3.48; AltName: Full=Protein-tyrosine phosphatase receptor type Z polypeptide 1; AltName: Full=Protein-tyrosine phosphatase receptor type Z polypeptide 2; AltName: Full=R-PTP-zeta-2; Flags: Precursor;
FUNCTION: May be involved in the regulation of specific developmental processes in the CNS.
CATALYTIC ACTIVITY: Protein tyrosine phosphate + H(2)O = protein tyrosine + phosphate.
SUBUNIT: The carbonic-anhydrase like domain binds to contactin (By similarity).
SUBCELLULAR LOCATION: Membrane; Single-pass type I membrane protein.
TISSUE SPECIFICITY: Specifically expressed in the central nervous system, where it is localized in the Purkinje cell layer of the cerebellum, the dentate gyrus, and the subependymal layer of the anterior horn of the lateral ventricle. Developmentally regulated in the brain.
SIMILARITY: Belongs to the protein-tyrosine phosphatase family. Receptor class 5 subfamily.
SIMILARITY: Contains 1 alpha-carbonic anhydrase domain.
SIMILARITY: Contains 1 fibronectin type-III domain.
SIMILARITY: Contains 2 tyrosine-protein phosphatase domains.
CAUTION: Was termed (PubMed:8387522 and PubMed:2170109) RPTPase beta.
CAUTION: The human genome was initially thought to contain 2 genes for PTPRZ: PTPRZ1 (on chr 7) and PTPRZ2 (on chr 1). However, PTPRZ2 probably does not exist and corresponds to PTPRZ1.
SEQUENCE CAUTION: Sequence=AAC39934.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. The N-terminus may be contaminated with vector sequence;

-  MalaCards Disease Associations
  MalaCards Gene Search: PTPRZ1
Diseases sorted by gene-association score: h. pylori infection* (35), hyperlysinemia (5)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 47.69 RPKM in Brain - Amygdala
Total median expression: 386.46 RPKM


View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -31.40139-0.226 Picture PostScript Text
3' UTR -37.00141-0.262 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR001148 - Carbonic_anhydrase_a
IPR003961 - Fibronectin_type3
IPR013783 - Ig-like_fold
IPR000387 - Tyr/Dual-specificity_Pase
IPR016130 - Tyr_Pase_AS
IPR000242 - Tyr_Pase_rcpt/non-rcpt

Pfam Domains:
PF00194 - Eukaryotic-type carbonic anhydrase
PF00041 - Fibronectin type III domain
PF00102 - Protein-tyrosine phosphatase

Protein Data Bank (PDB) 3-D Structure
MuPIT help
3JXF - X-ray MuPIT 3S97 - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P23471
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsembl   
Protein SequenceProtein SequenceProtein Sequence   
AlignmentAlignmentAlignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004721 phosphoprotein phosphatase activity
GO:0004725 protein tyrosine phosphatase activity
GO:0005001 transmembrane receptor protein tyrosine phosphatase activity
GO:0005515 protein binding
GO:0016787 hydrolase activity
GO:0016791 phosphatase activity

Biological Process:
GO:0002244 hematopoietic progenitor cell differentiation
GO:0006470 protein dephosphorylation
GO:0007409 axonogenesis
GO:0007417 central nervous system development
GO:0007611 learning or memory
GO:0016311 dephosphorylation
GO:0019221 cytokine-mediated signaling pathway
GO:0035335 peptidyl-tyrosine dephosphorylation
GO:0048709 oligodendrocyte differentiation
GO:0070445 regulation of oligodendrocyte progenitor proliferation

Cellular Component:
GO:0005576 extracellular region
GO:0005886 plasma membrane
GO:0005887 integral component of plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0031226 intrinsic component of plasma membrane
GO:0072534 perineuronal net


-  Descriptions from all associated GenBank mRNAs
  JA482198 - Sequence 181 from Patent WO2011072091.
JE980490 - Sequence 181 from Patent EP2862929.
U88967 - Human tyrosine phosphatase zeta polypeptide 2 (HTPZP2) mRNA, partial cds.
M93426 - Human protein tyrosine phosphatase zeta-polypeptide (PTPRZ) mRNA, complete cds.
BC131736 - Homo sapiens cDNA clone IMAGE:40125636, containing frame-shift errors.
BC172407 - Synthetic construct Homo sapiens clone IMAGE:100069101, MGC:199112 protein tyrosine phosphatase, receptor-type, Z polypeptide 1 (PTPRZ1) mRNA, encodes complete protein.
AK294062 - Homo sapiens cDNA FLJ53311 complete cds, highly similar to Receptor-type tyrosine-protein phosphatase zeta precursor (EC 3.1.3.48).
X54135 - Human HPTP zeta mRNA for protein tyrosine phosphatase zeta.
JD114203 - Sequence 95227 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa05120 - Epithelial cell signaling in Helicobacter pylori infection

Reactome (by CSHL, EBI, and GO)

Protein P23471 (Reactome details) participates in the following event(s):

R-HSA-8981657 IL34 dimer binds PTPRZ1
R-HSA-449836 Other interleukin signaling
R-HSA-449147 Signaling by Interleukins
R-HSA-1280215 Cytokine Signaling in Immune system
R-HSA-168256 Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: A4D0W5, HTPZP2, NM_001206839, O76043, P23471, PTPRZ, PTPRZ2, PTPRZ_HUMAN, PTPZ, Q9UDR6, uc003vjz.1, uc003vjz.2, uc003vjz.3, uc003vjz.4
UCSC ID: ENST00000449182.1
RefSeq Accession: NM_001206839
Protein: P23471 (aka PTPRZ_HUMAN)
CCDS: CCDS56505.1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.