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B3DK56

- PTPRU_DANRE

UniProt

B3DK56 - PTPRU_DANRE

Protein

Receptor-type tyrosine-protein phosphatase U

Gene

ptpru

Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 47 (01 Oct 2014)
      Sequence version 1 (22 Jul 2008)
      Previous versions | rss
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    Functioni

    Tyrosine-protein phosphatase which dephosphorylates CTNNB1. May function in cell proliferation and migration and play a role in the maintenance of epithelial integrity. Functions in somitogenesis. Functions as a regulator of the biochemical clock responsible for the segmentation of the presomitic mesoderm.1 Publication

    Catalytic activityi

    Protein tyrosine phosphate + H2O = protein tyrosine + phosphate.PROSITE-ProRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei1051 – 10511SubstrateSequence Analysis
    Active sitei1083 – 10831Phosphocysteine intermediateBy similarity
    Binding sitei1127 – 11271SubstrateBy similarity
    Active sitei1378 – 13781Phosphocysteine intermediateBy similarity

    GO - Molecular functioni

    1. protein tyrosine phosphatase activity Source: UniProtKB-EC

    GO - Biological processi

    1. cell adhesion Source: UniProtKB-KW
    2. cell differentiation Source: UniProtKB-KW
    3. somite specification Source: ZFIN

    Keywords - Molecular functioni

    Developmental protein, Hydrolase, Protein phosphatase, Receptor

    Keywords - Biological processi

    Cell adhesion, Differentiation

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Receptor-type tyrosine-protein phosphatase U (EC:3.1.3.48)
    Short name:
    R-PTP-U
    Alternative name(s):
    Receptor-type protein-tyrosine phosphatase psi
    Short name:
    R-PTP-psi
    Gene namesi
    Name:ptpru
    Synonyms:rptppsi
    OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
    Taxonomic identifieri7955 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio
    ProteomesiUP000000437: Unplaced

    Organism-specific databases

    ZFINiZDB-GENE-030131-7036. ptprub.

    Subcellular locationi

    Cell junction By similarity. Cell membrane By similarity; Single-pass type I membrane protein By similarity

    GO - Cellular componenti

    1. cell junction Source: UniProtKB-SubCell
    2. integral component of membrane Source: ZFIN
    3. plasma membrane Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Cell junction, Cell membrane, Membrane

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Signal peptidei1 – 1616Sequence AnalysisAdd
    BLAST
    Chaini17 – 14441428Receptor-type tyrosine-protein phosphatase UPRO_0000371661Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Glycosylationi73 – 731N-linked (GlcNAc...)Sequence Analysis
    Disulfide bondi206 ↔ 260Sequence Analysis
    Glycosylationi406 – 4061N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi684 – 6841N-linked (GlcNAc...)Sequence Analysis

    Keywords - PTMi

    Disulfide bond, Glycoprotein

    Expressioni

    Developmental stagei

    First detected in somites, pronephric duct, midbrain hindbrain boundary, otic vesicle and retina 10-24 after fertilization. When somite formation is complete expression becomes restricted to the retina, the forebrain midbrain, the midbrain hindbrain boundary, the otic vesicle and the branchial arches.1 Publication

    Structurei

    3D structure databases

    ProteinModelPortaliB3DK56.
    ModBaseiSearch...
    MobiDBiSearch...

    Topological domain

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Topological domaini17 – 748732ExtracellularSequence AnalysisAdd
    BLAST
    Topological domaini770 – 1444675CytoplasmicSequence AnalysisAdd
    BLAST

    Transmembrane

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transmembranei749 – 76921HelicalSequence AnalysisAdd
    BLAST

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini24 – 184161MAMPROSITE-ProRule annotationAdd
    BLAST
    Domaini186 – 27186Ig-like C2-typeAdd
    BLAST
    Domaini284 – 37996Fibronectin type-III 1PROSITE-ProRule annotationAdd
    BLAST
    Domaini382 – 483102Fibronectin type-III 2PROSITE-ProRule annotationAdd
    BLAST
    Domaini489 – 590102Fibronectin type-III 3PROSITE-ProRule annotationAdd
    BLAST
    Domaini597 – 67781Fibronectin type-III 4PROSITE-ProRule annotationAdd
    BLAST
    Domaini886 – 1142257Tyrosine-protein phosphatase 1PROSITE-ProRule annotationAdd
    BLAST
    Domaini1174 – 1437264Tyrosine-protein phosphatase 2PROSITE-ProRule annotationAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni1083 – 10897Substrate bindingBy similarity

    Sequence similaritiesi

    Contains 4 fibronectin type-III domains.PROSITE-ProRule annotation
    Contains 1 MAM domain.PROSITE-ProRule annotation
    Contains 2 tyrosine-protein phosphatase domains.PROSITE-ProRule annotation

    Keywords - Domaini

    Immunoglobulin domain, Repeat, Signal, Transmembrane, Transmembrane helix

    Phylogenomic databases

    eggNOGiNOG311686.
    HOGENOMiHOG000049029.
    InParanoidiQ6E5N7.
    KOiK16662.
    PhylomeDBiB3DK56.

    Family and domain databases

    Gene3Di2.60.40.10. 4 hits.
    3.90.190.10. 2 hits.
    InterProiIPR008985. ConA-like_lec_gl_sf.
    IPR003961. Fibronectin_type3.
    IPR013783. Ig-like_fold.
    IPR003599. Ig_sub.
    IPR000998. MAM_dom.
    IPR029021. Prot-tyrosine_phosphatase-like.
    IPR000387. Tyr/Dual-sp_Pase.
    IPR016130. Tyr_Pase_AS.
    IPR000242. Tyr_Pase_rcpt/non-rcpt.
    [Graphical view]
    PfamiPF00041. fn3. 1 hit.
    PF00629. MAM. 1 hit.
    PF00102. Y_phosphatase. 2 hits.
    [Graphical view]
    PRINTSiPR00020. MAMDOMAIN.
    PR00700. PRTYPHPHTASE.
    SMARTiSM00060. FN3. 3 hits.
    SM00409. IG. 1 hit.
    SM00137. MAM. 1 hit.
    SM00194. PTPc. 2 hits.
    [Graphical view]
    SUPFAMiSSF49265. SSF49265. 2 hits.
    SSF49899. SSF49899. 1 hit.
    SSF52799. SSF52799. 2 hits.
    PROSITEiPS50853. FN3. 3 hits.
    PS00740. MAM_1. 1 hit.
    PS50060. MAM_2. 1 hit.
    PS00383. TYR_PHOSPHATASE_1. 2 hits.
    PS50056. TYR_PHOSPHATASE_2. 2 hits.
    PS50055. TYR_PHOSPHATASE_PTP. 2 hits.
    [Graphical view]

    Sequences (2)i

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    This entry describes 2 isoformsi produced by alternative splicing. Align

    Isoform 1 (identifier: B3DK56-1) [UniParc]FASTAAdd to Basket

    This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

    « Hide

    MNTCAFLLIL AVQIHADSVE GPTAGCTFDE DSDPSLCEFS QGEEDDFDWQ     50
    LFRAHASPHS TSDLLRGSYM MVNSSQHAAG QRAQLLLQTL SENDTHCVQF 100
    SYFLYSRDGH SPGALRVYVR VNGGPLGIPV WNVSGSRGRQ WHQVELAVST 150
    FWPNEYQILL EATVDRKGYI AVDDILLLNY PCYKAPHFSR LGDVEVNAGQ 200
    NATFQCVAAG RPSEAEKFLL ERHNGEVSSG GSVKHLGRNR FAVSFQLEDV 250
    QKPEQDLYRC VTQSSRGSGV SNFAELIVKV PPSPIAPPQL LRAGSTYLII 300
    QLNTNSILGD GPIIRREIEY RASLAPWSEI LGVNMVTYKL WHLDPDTEYH 350
    ISVLLTRPGE GGTGPPGPPL ISRTKCAEPM RALRGLRASE IQSRQLTLQW 400
    EVPAFNLTRC HTYSVSLCYR YTTAGGGGGH NTTVRECLAV EHNTSRFTLR 450
    DLPPFHTIQI RLALANTEGK KEGKEVMFQT EEDIPGGIAP ESLTFTPLED 500
    MIFLKWEEPV EPNGLITQYE ISYQSIESSD PGINVPGPRR TVSKLKNETY 550
    HMFSNLHPGT TYLISVRART AKGFGQTALT EITTNISAPT FDYGDMPSPL 600
    SETENTITVL LRPAQGRGAP VSTYQVVVEE EAGRKVKREL GIQDCFPIPT 650
    SHGEAQARGA PHYYTAELPP SSLSEATPFT VGDNHTYNGY WNSPLDPRKN 700
    YLVYFQAMSN FRGETRINCI RIARKAACKD HQRALEVTQR SEEMGLILGV 750
    CAGGLVVLIL LLGAIIIIIK KGRDYYSYSY YPRKPGNMNK TPITYRQEKS 800
    NMMGSMERSF TDQSTLQEDE RMALSFMDTH TCSTRSDPRS SMNESSSLLG 850
    GSPRRQCGRK GSPYHTGQLH PAVRVADLLQ HINQMKTAEG YGFKQEYESF 900
    FDGWDINKKK DKTKGRHDTL MGYDRHRVKL HPLLGDPNSD YINANYIDGY 950
    HRSNHFIATQ GPKQETVYDF WRMVWQENCF SIVMITKLVE VGRVKCCKYW 1000
    PDESEMYGDI KITLLKTETL AEYTVRTFAL ERRGYSAKHE VCQFHFTSWP 1050
    EHGVPYHATG LLAFIRRVKT STPLDAGPVV VHCSVGAGRT GCYIVLDVML 1100
    DMAECEGVVD IYNCVKTLCS RRINMIQTEE QYIFIHDAIL EACLCGETAI 1150
    PVNEFALAYK EMLRVDSQSN SSQLREEFQT LNSVTPHLDV EECSIALLPR 1200
    NREKNRSMDV LPPDRALAFL VTTEGESNNY INAALMDSFH RPAAFIVTPH 1250
    PLPGTTSDFW RLVFDYGCTS VVMLNQLNQS NSAWPCVQYW PEPGLQQYGP 1300
    MQVEFLSMSA DEDIITRLFR VKNVTRLQEG QLVVCQFQFL RWSAYRDVPD 1350
    SKKAFLNLLA SVQKWQRECG EGRTVVHCLN GGGRSGTYCA SNILMEMIQY 1400
    QNIVDVFYAV KTLRNAKPNM VETLEQYRFC YELVLEYLDC LEVR 1444
    Length:1,444
    Mass (Da):162,661
    Last modified:July 22, 2008 - v1
    Checksum:iA4C3CDAFFD3D88B1
    GO
    Isoform 2 (identifier: B3DK56-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         773-782: Missing.

    Show »
    Length:1,434
    Mass (Da):161,302
    Checksum:i527A7B61CBA4443A
    GO

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei773 – 78210Missing in isoform 2. 2 PublicationsVSP_037087

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AY555586 mRNA. Translation: AAT37515.1.
    BC163712 mRNA. Translation: AAI63712.1.
    BC163727 mRNA. Translation: AAI63727.1.
    RefSeqiNP_001002299.1. NM_001002299.1. [B3DK56-2]
    UniGeneiDr.20078.

    Genome annotation databases

    GeneIDi335096.
    KEGGidre:335096.

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AY555586 mRNA. Translation: AAT37515.1 .
    BC163712 mRNA. Translation: AAI63712.1 .
    BC163727 mRNA. Translation: AAI63727.1 .
    RefSeqi NP_001002299.1. NM_001002299.1. [B3DK56-2 ]
    UniGenei Dr.20078.

    3D structure databases

    ProteinModelPortali B3DK56.
    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    GeneIDi 335096.
    KEGGi dre:335096.

    Organism-specific databases

    CTDi 335096.
    ZFINi ZDB-GENE-030131-7036. ptprub.

    Phylogenomic databases

    eggNOGi NOG311686.
    HOGENOMi HOG000049029.
    InParanoidi Q6E5N7.
    KOi K16662.
    PhylomeDBi B3DK56.

    Miscellaneous databases

    NextBioi 20810666.

    Family and domain databases

    Gene3Di 2.60.40.10. 4 hits.
    3.90.190.10. 2 hits.
    InterProi IPR008985. ConA-like_lec_gl_sf.
    IPR003961. Fibronectin_type3.
    IPR013783. Ig-like_fold.
    IPR003599. Ig_sub.
    IPR000998. MAM_dom.
    IPR029021. Prot-tyrosine_phosphatase-like.
    IPR000387. Tyr/Dual-sp_Pase.
    IPR016130. Tyr_Pase_AS.
    IPR000242. Tyr_Pase_rcpt/non-rcpt.
    [Graphical view ]
    Pfami PF00041. fn3. 1 hit.
    PF00629. MAM. 1 hit.
    PF00102. Y_phosphatase. 2 hits.
    [Graphical view ]
    PRINTSi PR00020. MAMDOMAIN.
    PR00700. PRTYPHPHTASE.
    SMARTi SM00060. FN3. 3 hits.
    SM00409. IG. 1 hit.
    SM00137. MAM. 1 hit.
    SM00194. PTPc. 2 hits.
    [Graphical view ]
    SUPFAMi SSF49265. SSF49265. 2 hits.
    SSF49899. SSF49899. 1 hit.
    SSF52799. SSF52799. 2 hits.
    PROSITEi PS50853. FN3. 3 hits.
    PS00740. MAM_1. 1 hit.
    PS50060. MAM_2. 1 hit.
    PS00383. TYR_PHOSPHATASE_1. 2 hits.
    PS50056. TYR_PHOSPHATASE_2. 2 hits.
    PS50055. TYR_PHOSPHATASE_PTP. 2 hits.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Receptor tyrosine phosphatase psi is required for delta/notch signalling and cyclic gene expression in the presomitic mesoderm."
      Aerne B., Ish-Horowicz D.
      Development 131:3391-3399(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2), FUNCTION, DEVELOPMENTAL STAGE.
      Tissue: Embryo.
    2. NIH - Zebrafish Gene Collection (ZGC) project
      Submitted (APR-2008) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2).

    Entry informationi

    Entry nameiPTPRU_DANRE
    AccessioniPrimary (citable) accession number: B3DK56
    Secondary accession number(s): Q6E5N7
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 5, 2009
    Last sequence update: July 22, 2008
    Last modified: October 1, 2014
    This is version 47 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    Embryos lacking ptpru display severe disruption of their segmental pattern and loss of cyclic gene expression in the presomitic mesoderm. Convergent extension during gastrulation is also affected.

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3