Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Basket 0
(max 400 entries)x

Your basket is currently empty.

Select item(s) and click on "Add to basket" to create your own collection here
(400 entries max)

D3ZE55

- PCDH8_RAT

UniProt

D3ZE55 - PCDH8_RAT

Protein

Protocadherin-8

Gene

Pcdh8

Organism
Rattus norvegicus (Rat)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
    • BLAST
    • Align
    • Format
    • Add to basket
    • History
      Entry version 33 (01 Oct 2014)
      Sequence version 2 (08 Feb 2011)
      Previous versions | rss
    • Help video
    • Feedback
    • Comment

    Functioni

    Calcium-dependent cell-adhesion protein. May play a role in activity-induced synaptic reorganization underlying long term memory. Could be involved in CDH2 internalization through TAOK2/p38 MAPK pathway. In hippocampal neurons, may play a role in the down-regulation of dendritic spines, maybe through its action on CDH2 endocytosis.2 Publications

    GO - Molecular functioni

    1. calcium ion binding Source: InterPro

    GO - Biological processi

    1. homophilic cell adhesion Source: InterPro
    2. long-term memory Source: RGD
    3. morphogenesis of embryonic epithelium Source: Ensembl
    4. somitogenesis Source: Ensembl
    5. synaptic transmission Source: RGD

    Keywords - Biological processi

    Cell adhesion

    Keywords - Ligandi

    Calcium

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Protocadherin-8
    Alternative name(s):
    Activity-regulated cadherin-like protein
    Short name:
    Arcadlin
    Gene namesi
    Name:Pcdh8
    OrganismiRattus norvegicus (Rat)
    Taxonomic identifieri10116 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
    ProteomesiUP000002494: Chromosome 15

    Organism-specific databases

    RGDi69350. Pcdh8.

    Subcellular locationi

    Cell membrane By similarity; Single-pass type I membrane protein By similarity. Cell projectiondendrite 1 Publication. Cell junctionsynapsepresynaptic cell membrane 1 Publication. Cell junctionsynapsepostsynaptic cell membrane 1 Publication
    Note: Also expressed in the cell bodies of neurons of the hippocampus and cortex. Localized to excitatory, but not with inhibitory, synapses.

    GO - Cellular componenti

    1. cell junction Source: UniProtKB-KW
    2. dendrite Source: UniProtKB-SubCell
    3. integral component of membrane Source: UniProtKB-KW
    4. postsynaptic membrane Source: UniProtKB-SubCell
    5. presynaptic membrane Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Cell junction, Cell membrane, Cell projection, Membrane, Postsynaptic cell membrane, Synapse

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Signal peptidei1 – 2929Sequence AnalysisAdd
    BLAST
    Chaini30 – 10691040Protocadherin-8PRO_0000404297Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Glycosylationi616 – 6161N-linked (GlcNAc...)Sequence Analysis

    Keywords - PTMi

    Glycoprotein

    PTM databases

    PhosphoSiteiD3ZE55.

    Expressioni

    Tissue specificityi

    Enriched in brain relative to peripheral tissues, with low expression in the testis. Expressed in hippocampal neurons (at protein level).1 Publication

    Developmental stagei

    At E17, expressed in the auditory circuit, most prominently in the inferior colliculus, and later in the medial geniculate and the auditory cortex at P0. At P0, also expressed in targets of retinal projections, such as the superior colliculus, the suprachiasmatic nucleus, and the ventrolateral geniculate nucleus. At the same stage, detected in selected structures of the limbic circuit, including the anterior limbic thalamic nuclei, the hippocampus, amygdala and habenula.1 Publication

    Inductioni

    Rapidly and transiently induced by maximal electroconvulsive seizure in the hippocampal granule cells, and modestly induced in the pyramidal cells. Also induced by cAMP.2 Publications

    Interactioni

    Subunit structurei

    The N-terminal extracellular domain forms homophilic interactions; these interactions activate p38 MAPK via TAOK2 and trigger endocytosis. Interacts with CDH2; this interaction may lead to CDH2 cointernalization. Interacts with CDH11. Interacts with TAOK2.2 Publications

    Protein-protein interaction databases

    STRINGi10116.ENSRNOP00000017599.

    Structurei

    Topological domain

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Topological domaini30 – 747718ExtracellularSequence AnalysisAdd
    BLAST
    Topological domaini769 – 1069301CytoplasmicSequence AnalysisAdd
    BLAST

    Transmembrane

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transmembranei748 – 76821HelicalSequence AnalysisAdd
    BLAST

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini30 – 135106Cadherin 1PROSITE-ProRule annotationAdd
    BLAST
    Domaini136 – 245110Cadherin 2PROSITE-ProRule annotationAdd
    BLAST
    Domaini247 – 354108Cadherin 3PROSITE-ProRule annotationAdd
    BLAST
    Domaini393 – 497105Cadherin 4PROSITE-ProRule annotationAdd
    BLAST
    Domaini498 – 609112Cadherin 5PROSITE-ProRule annotationAdd
    BLAST
    Domaini615 – 721107Cadherin 6PROSITE-ProRule annotationAdd
    BLAST

    Sequence similaritiesi

    Contains 6 cadherin domains.PROSITE-ProRule annotation

    Keywords - Domaini

    Repeat, Signal, Transmembrane, Transmembrane helix

    Phylogenomic databases

    GeneTreeiENSGT00750000117335.
    HOVERGENiHBG054878.
    KOiK16499.
    OMAiPAQMSTF.
    OrthoDBiEOG7J445X.
    PhylomeDBiD3ZE55.

    Family and domain databases

    Gene3Di2.60.40.60. 6 hits.
    InterProiIPR002126. Cadherin.
    IPR015919. Cadherin-like.
    IPR020894. Cadherin_CS.
    IPR013164. Cadherin_N.
    [Graphical view]
    PfamiPF00028. Cadherin. 5 hits.
    PF08266. Cadherin_2. 1 hit.
    [Graphical view]
    PRINTSiPR00205. CADHERIN.
    SMARTiSM00112. CA. 6 hits.
    [Graphical view]
    SUPFAMiSSF49313. SSF49313. 6 hits.
    PROSITEiPS00232. CADHERIN_1. 5 hits.
    PS50268. CADHERIN_2. 6 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: D3ZE55-1) [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

    MSPVKRWGSP CLFPLQLFSL CWVLSVAQSK TVRYSTFEED APGTVIGTLA     50
    EDLHMKVSGD TSFRLMKQFN SSLLRVREGD GQLTVGDAGL DRERLCGQSP 100
    QCVLAFDVVS FSQEQFRLVH VEVEVRDVND HAPRFPRAQI PVEVSESAPV 150
    GTRIPLEVPV DEDVGANGLQ SVRLAEPHSP FRVELQTRAD GAQCADLVLL 200
    QELDRESQAS YSLELVAQDG GRPPRSATAA LSVRVLDAND HSPAFPQGAV 250
    AEVELAEDAP VGSLLLDLDA ADPDEGPNGD VVFTFGARTP PEARHLFRLD 300
    PRSGRLTLAG QVDYERQDTY ELDVRAQDRG PGPRTATCKV IVRIRDVNDN 350
    APDISITPLA APGAPATSPF AAAAAAAALG GADAASSAGS GTQETGVTSL 400
    VPEGAARESL VALVSTSDRD SGANGQVRCA LYGHEHFRLQ PAYAGSYLVV 450
    TAASLDRERI AEYNLTLVAE DRGAPPLRTV RPYTVRVGDE NDNAPLFTKP 500
    VYEVSVRENN PPGAYLATVA ARDPDLGRNG QVTYRLVEAE VGRSGEAVST 550
    YVSVDPATGA IYALRSFDYE TLRQLDVRVQ ASDGGSPQLS SNALVQVRVL 600
    DQNDHSPVLV HPAPANGSLE VAVPGRSTKD TAVARIQARD ADEGANGELA 650
    FDLLQQEPRE AFSIGRHTGE IVLTGDLSQE PPGRVFKALL VISDGGRPPL 700
    TTTATVSFVV TAGGGSAVPA SAGSPEHFRP PGSRLAPSGP SLQWDTPLIV 750
    IIVLAGSCTL LLAAIIAIAT TCNRRKKEVR KGGALREERP GAAGGGASAP 800
    GSPDETARGT GPRPNMFDVL TFPGSGKAPF GSPAADAPPP AVAAAEVPGS 850
    EGGSATGESA CHFEGQQRLR GAHAEPYSAS PGFGKEPAPP VAVWKGHSFN 900
    TISGREAEKF SGKDSGKGDS DFNDSDSDIS GDALKKDLIN HMQSGLWACT 950
    AECKILGHSD RCWSPSCAGP NTHPPPHPPA QMSTFCKSTS LPRDPLRRDN 1000
    YYQAQLPKTV GLQSVYEKVL HRDYDRTVTL LSPPRPGRLP DLQEIGVPLY 1050
    ESPPGGRYVS PKKGTNENV 1069

    Note: No experimental confirmation available.

    Length:1,069
    Mass (Da):113,191
    Last modified:February 8, 2011 - v2
    Checksum:i307DB9763F69D7D3
    GO
    Isoform 2 (identifier: D3ZE55-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         779-875: Missing.

    Note: May be the only physiologically relevant isoform.1 Publication

    Show »
    Length:972
    Mass (Da):103,774
    Checksum:i6968FA65FF82123F
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti351 – 3511A → P in BAA82442. (PubMed:10383464)Curated

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei779 – 87597Missing in isoform 2. 1 PublicationVSP_040565Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AB026154 mRNA. Translation: BAA82442.1.
    CH473951 Genomic DNA. Translation: EDM02373.1.
    BC128737 mRNA. Translation: AAI28738.1.
    RefSeqiNP_074059.1. NM_022868.1.
    XP_006252437.1. XM_006252375.1. [D3ZE55-1]
    UniGeneiRn.23337.

    Genome annotation databases

    EnsembliENSRNOT00000017599; ENSRNOP00000017599; ENSRNOG00000013101. [D3ZE55-1]
    GeneIDi64865.
    KEGGirno:64865.

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AB026154 mRNA. Translation: BAA82442.1 .
    CH473951 Genomic DNA. Translation: EDM02373.1 .
    BC128737 mRNA. Translation: AAI28738.1 .
    RefSeqi NP_074059.1. NM_022868.1.
    XP_006252437.1. XM_006252375.1. [D3ZE55-1 ]
    UniGenei Rn.23337.

    3D structure databases

    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 10116.ENSRNOP00000017599.

    PTM databases

    PhosphoSitei D3ZE55.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSRNOT00000017599 ; ENSRNOP00000017599 ; ENSRNOG00000013101 . [D3ZE55-1 ]
    GeneIDi 64865.
    KEGGi rno:64865.

    Organism-specific databases

    CTDi 5100.
    RGDi 69350. Pcdh8.

    Phylogenomic databases

    GeneTreei ENSGT00750000117335.
    HOVERGENi HBG054878.
    KOi K16499.
    OMAi PAQMSTF.
    OrthoDBi EOG7J445X.
    PhylomeDBi D3ZE55.

    Miscellaneous databases

    NextBioi 613776.
    PROi D3ZE55.

    Family and domain databases

    Gene3Di 2.60.40.60. 6 hits.
    InterProi IPR002126. Cadherin.
    IPR015919. Cadherin-like.
    IPR020894. Cadherin_CS.
    IPR013164. Cadherin_N.
    [Graphical view ]
    Pfami PF00028. Cadherin. 5 hits.
    PF08266. Cadherin_2. 1 hit.
    [Graphical view ]
    PRINTSi PR00205. CADHERIN.
    SMARTi SM00112. CA. 6 hits.
    [Graphical view ]
    SUPFAMi SSF49313. SSF49313. 6 hits.
    PROSITEi PS00232. CADHERIN_1. 5 hits.
    PS50268. CADHERIN_2. 6 hits.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2), FUNCTION, SUBUNIT, SUBCELLULAR LOCATION, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE, INDUCTION.
      Tissue: Hippocampus.
    2. "Genome sequence of the Brown Norway rat yields insights into mammalian evolution."
      Gibbs R.A., Weinstock G.M., Metzker M.L., Muzny D.M., Sodergren E.J., Scherer S., Scott G., Steffen D., Worley K.C., Burch P.E., Okwuonu G., Hines S., Lewis L., Deramo C., Delgado O., Dugan-Rocha S., Miner G., Morgan M.
      , Hawes A., Gill R., Holt R.A., Adams M.D., Amanatides P.G., Baden-Tillson H., Barnstead M., Chin S., Evans C.A., Ferriera S., Fosler C., Glodek A., Gu Z., Jennings D., Kraft C.L., Nguyen T., Pfannkoch C.M., Sitter C., Sutton G.G., Venter J.C., Woodage T., Smith D., Lee H.-M., Gustafson E., Cahill P., Kana A., Doucette-Stamm L., Weinstock K., Fechtel K., Weiss R.B., Dunn D.M., Green E.D., Blakesley R.W., Bouffard G.G., De Jong P.J., Osoegawa K., Zhu B., Marra M., Schein J., Bosdet I., Fjell C., Jones S., Krzywinski M., Mathewson C., Siddiqui A., Wye N., McPherson J., Zhao S., Fraser C.M., Shetty J., Shatsman S., Geer K., Chen Y., Abramzon S., Nierman W.C., Havlak P.H., Chen R., Durbin K.J., Egan A., Ren Y., Song X.-Z., Li B., Liu Y., Qin X., Cawley S., Cooney A.J., D'Souza L.M., Martin K., Wu J.Q., Gonzalez-Garay M.L., Jackson A.R., Kalafus K.J., McLeod M.P., Milosavljevic A., Virk D., Volkov A., Wheeler D.A., Zhang Z., Bailey J.A., Eichler E.E., Tuzun E., Birney E., Mongin E., Ureta-Vidal A., Woodwark C., Zdobnov E., Bork P., Suyama M., Torrents D., Alexandersson M., Trask B.J., Young J.M., Huang H., Wang H., Xing H., Daniels S., Gietzen D., Schmidt J., Stevens K., Vitt U., Wingrove J., Camara F., Mar Alba M., Abril J.F., Guigo R., Smit A., Dubchak I., Rubin E.M., Couronne O., Poliakov A., Huebner N., Ganten D., Goesele C., Hummel O., Kreitler T., Lee Y.-A., Monti J., Schulz H., Zimdahl H., Himmelbauer H., Lehrach H., Jacob H.J., Bromberg S., Gullings-Handley J., Jensen-Seaman M.I., Kwitek A.E., Lazar J., Pasko D., Tonellato P.J., Twigger S., Ponting C.P., Duarte J.M., Rice S., Goodstadt L., Beatson S.A., Emes R.D., Winter E.E., Webber C., Brandt P., Nyakatura G., Adetobi M., Chiaromonte F., Elnitski L., Eswara P., Hardison R.C., Hou M., Kolbe D., Makova K., Miller W., Nekrutenko A., Riemer C., Schwartz S., Taylor J., Yang S., Zhang Y., Lindpaintner K., Andrews T.D., Caccamo M., Clamp M., Clarke L., Curwen V., Durbin R.M., Eyras E., Searle S.M., Cooper G.M., Batzoglou S., Brudno M., Sidow A., Stone E.A., Payseur B.A., Bourque G., Lopez-Otin C., Puente X.S., Chakrabarti K., Chatterji S., Dewey C., Pachter L., Bray N., Yap V.B., Caspi A., Tesler G., Pevzner P.A., Haussler D., Roskin K.M., Baertsch R., Clawson H., Furey T.S., Hinrichs A.S., Karolchik D., Kent W.J., Rosenbloom K.R., Trumbower H., Weirauch M., Cooper D.N., Stenson P.D., Ma B., Brent M., Arumugam M., Shteynberg D., Copley R.R., Taylor M.S., Riethman H., Mudunuri U., Peterson J., Guyer M., Felsenfeld A., Old S., Mockrin S., Collins F.S.
      Nature 428:493-521(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: Brown Norway.
    3. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
      The MGC Project Team
      Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1-694.
      Strain: Brown Norway/NHsdMcwi.
      Tissue: Embryonic brain.
    4. "Activity-induced protocadherin arcadlin regulates dendritic spine number by triggering N-cadherin endocytosis via TAO2beta and p38 MAP kinases."
      Yasuda S., Tanaka H., Sugiura H., Okamura K., Sakaguchi T., Tran U., Takemiya T., Mizoguchi A., Yagita Y., Sakurai T., De Robertis E.M., Yamagata K.
      Neuron 56:456-471(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, INTERACTION WITH CDH2; CDH11 AND TAOK2, INDUCTION.

    Entry informationi

    Entry nameiPCDH8_RAT
    AccessioniPrimary (citable) accession number: D3ZE55
    Secondary accession number(s): A1A5N4, Q9WVR2
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: February 8, 2011
    Last sequence update: February 8, 2011
    Last modified: October 1, 2014
    This is version 33 of the entry and version 2 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3