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Q9Y5F2

- PCDBB_HUMAN

UniProt

Q9Y5F2 - PCDBB_HUMAN

Protein

Protocadherin beta-11

Gene

PCDHB11

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 117 (01 Oct 2014)
      Sequence version 1 (01 Nov 1999)
      Previous versions | rss
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    Functioni

    Potential calcium-dependent cell-adhesion protein. May be involved in the establishment and maintenance of specific neuronal connections in the brain.

    GO - Molecular functioni

    1. calcium ion binding Source: InterPro

    GO - Biological processi

    1. calcium-dependent cell-cell adhesion Source: UniProtKB
    2. cell adhesion Source: ProtInc
    3. homophilic cell adhesion Source: InterPro
    4. nervous system development Source: ProtInc
    5. synapse assembly Source: UniProtKB
    6. synaptic transmission Source: UniProtKB

    Keywords - Biological processi

    Cell adhesion

    Keywords - Ligandi

    Calcium

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Protocadherin beta-11
    Short name:
    PCDH-beta-11
    Gene namesi
    Name:PCDHB11
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 5

    Organism-specific databases

    HGNCiHGNC:8682. PCDHB11.

    Subcellular locationi

    GO - Cellular componenti

    1. integral component of membrane Source: UniProtKB
    2. integral component of plasma membrane Source: ProtInc

    Keywords - Cellular componenti

    Cell membrane, Membrane

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA33027.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Signal peptidei1 – 2626Sequence AnalysisAdd
    BLAST
    Chaini27 – 797771Protocadherin beta-11PRO_0000003934Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Glycosylationi418 – 4181N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi436 – 4361N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi487 – 4871N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi567 – 5671N-linked (GlcNAc...)Sequence Analysis

    Keywords - PTMi

    Glycoprotein

    Proteomic databases

    PaxDbiQ9Y5F2.
    PRIDEiQ9Y5F2.

    PTM databases

    PhosphoSiteiQ9Y5F2.

    Expressioni

    Gene expression databases

    ArrayExpressiQ9Y5F2.
    BgeeiQ9Y5F2.
    CleanExiHS_PCDHB11.
    GenevestigatoriQ9Y5F2.

    Organism-specific databases

    HPAiHPA045042.

    Interactioni

    Protein-protein interaction databases

    BioGridi121065. 1 interaction.

    Structurei

    3D structure databases

    ProteinModelPortaliQ9Y5F2.
    SMRiQ9Y5F2. Positions 30-677.
    ModBaseiSearch...
    MobiDBiSearch...

    Topological domain

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Topological domaini27 – 690664ExtracellularSequence AnalysisAdd
    BLAST
    Topological domaini712 – 79786CytoplasmicSequence AnalysisAdd
    BLAST

    Transmembrane

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transmembranei691 – 71121HelicalSequence AnalysisAdd
    BLAST

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini35 – 13399Cadherin 1PROSITE-ProRule annotationAdd
    BLAST
    Domaini138 – 242105Cadherin 2PROSITE-ProRule annotationAdd
    BLAST
    Domaini247 – 347101Cadherin 3PROSITE-ProRule annotationAdd
    BLAST
    Domaini352 – 451100Cadherin 4PROSITE-ProRule annotationAdd
    BLAST
    Domaini456 – 561106Cadherin 5PROSITE-ProRule annotationAdd
    BLAST
    Domaini568 – 671104Cadherin 6PROSITE-ProRule annotationAdd
    BLAST

    Sequence similaritiesi

    Contains 6 cadherin domains.PROSITE-ProRule annotation

    Keywords - Domaini

    Repeat, Signal, Transmembrane, Transmembrane helix

    Phylogenomic databases

    eggNOGiNOG251260.
    HOVERGENiHBG054878.
    InParanoidiQ9Y5F2.
    KOiK16494.
    OMAiKTEHNTT.
    OrthoDBiEOG7KSX80.
    PhylomeDBiQ9Y5F2.
    TreeFamiTF332299.

    Family and domain databases

    Gene3Di2.60.40.60. 5 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: Q9Y5F2-1) [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

    MENQGTRTQQ IRQVLLLFVL LGMSQAGSET WSFSVAEEMQ SGSFVGNLAK    50
    DLGLKVRELS SRGARVVSND KKQRLQLDIN TGDLLLSETL DREELCGSIE 100
    PCVLHLQVLM QNPTQFLQIE LQVRDINDHS PIFSEKQMLL EIPENSPVGA 150
    VFLLESAKDL DVGINAVKSY TISPNSHFHI KMRVIPDNRK YPELVLDKAL 200
    DYEELPELSF ILSALDGGSP PRSGTALVRV VVVDINDNSP EFEQAFYEVK 250
    IRENSILGSL ILIVSAWDLD SGTNGEICYT FSHASEDIRK TFEINQKSGE 300
    ITLRAPLDFE TIESYSIIIQ ATDGGGLFGK STVIIHVIDV NDNAPEITVS 350
    SITSPIPENT PETVVMVFSI QDIDSGDNGR IVCSIPEDLP FVLKSSVENY 400
    YTLETERPLD RESTAEYNIT ITVTDLGIPR LKTEHNTTVL VSDVNDNAPT 450
    FTQTSYTLFV RENNSPALHI GSVSATDRDS GTNAQVNYSL LPPQDLHLPL 500
    ASLVSINTDN GHLFALRSLD YEALQAFDFR VGATDRGSPA LSSEALVRVL 550
    VLDANDNSPF VLYPLQNGSA PCTELVPRAA EPGYLVTKVV AVDGDSGQNA 600
    WLSYQLLKAT EPGLFGVWAH NGEVRTARLL SERDAAKHRL VVLVKDNGEP 650
    PRSATATLQV LLVDGFSQPY LPLPEAAPAQ AQADSLTVYL VVALASVSSL 700
    FLFSVLLFVA VRLCRRSRAA SVGSCSVPKG PFPGHLVDVS GTGTLSQSYQ 750
    YEVCLTGGSE TNEFKFLKPV IPNIQAKGLG KNSEENSTFR NSFGFNF 797
    Length:797
    Mass (Da):87,088
    Last modified:November 1, 1999 - v1
    Checksum:i8FBA0DBCC2858504
    GO
    Isoform 2 (identifier: Q9Y5F2-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         1-365: Missing.

    Note: No experimental confirmation available.

    Show »
    Length:432
    Mass (Da):46,732
    Checksum:i3EE3340AF7EE89BB
    GO

    Natural variant

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti4 – 41Q → R.
    Corresponds to variant rs3756323 [ dbSNP | Ensembl ].
    VAR_021881
    Natural varianti7 – 71R → H.
    Corresponds to variant rs917535 [ dbSNP | Ensembl ].
    VAR_048553
    Natural varianti528 – 5281D → E.
    Corresponds to variant rs799834 [ dbSNP | Ensembl ].
    VAR_059188

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei1 – 365365Missing in isoform 2. 1 PublicationVSP_055931Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF152490 mRNA. Translation: AAD43751.1.
    AF217747 mRNA. Translation: AAK51615.1.
    AK299719 mRNA. Translation: BAG61619.1.
    AC005752 Genomic DNA. No translation available.
    BC112132 mRNA. Translation: AAI12133.1.
    BC113611 mRNA. Translation: AAI13612.1.
    CCDSiCCDS4253.1.
    RefSeqiNP_061754.1. NM_018931.2.
    UniGeneiHs.283084.

    Genome annotation databases

    EnsembliENST00000354757; ENSP00000346802; ENSG00000197479.
    ENST00000536699; ENSP00000440344; ENSG00000197479.
    GeneIDi56125.
    KEGGihsa:56125.
    UCSCiuc003liy.3. human.

    Polymorphism databases

    DMDMi13431383.

    Keywords - Coding sequence diversityi

    Alternative splicing, Polymorphism

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF152490 mRNA. Translation: AAD43751.1 .
    AF217747 mRNA. Translation: AAK51615.1 .
    AK299719 mRNA. Translation: BAG61619.1 .
    AC005752 Genomic DNA. No translation available.
    BC112132 mRNA. Translation: AAI12133.1 .
    BC113611 mRNA. Translation: AAI13612.1 .
    CCDSi CCDS4253.1.
    RefSeqi NP_061754.1. NM_018931.2.
    UniGenei Hs.283084.

    3D structure databases

    ProteinModelPortali Q9Y5F2.
    SMRi Q9Y5F2. Positions 30-677.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 121065. 1 interaction.

    PTM databases

    PhosphoSitei Q9Y5F2.

    Polymorphism databases

    DMDMi 13431383.

    Proteomic databases

    PaxDbi Q9Y5F2.
    PRIDEi Q9Y5F2.

    Protocols and materials databases

    DNASUi 56125.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000354757 ; ENSP00000346802 ; ENSG00000197479 .
    ENST00000536699 ; ENSP00000440344 ; ENSG00000197479 .
    GeneIDi 56125.
    KEGGi hsa:56125.
    UCSCi uc003liy.3. human.

    Organism-specific databases

    CTDi 56125.
    GeneCardsi GC05P140579.
    HGNCi HGNC:8682. PCDHB11.
    HPAi HPA045042.
    MIMi 604967. gene.
    606337. gene.
    neXtProti NX_Q9Y5F2.
    PharmGKBi PA33027.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi NOG251260.
    HOVERGENi HBG054878.
    InParanoidi Q9Y5F2.
    KOi K16494.
    OMAi KTEHNTT.
    OrthoDBi EOG7KSX80.
    PhylomeDBi Q9Y5F2.
    TreeFami TF332299.

    Miscellaneous databases

    GeneWikii PCDHB11.
    GenomeRNAii 56125.
    NextBioi 61632.
    PROi Q9Y5F2.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi Q9Y5F2.
    Bgeei Q9Y5F2.
    CleanExi HS_PCDHB11.
    Genevestigatori Q9Y5F2.

    Family and domain databases

    Gene3Di 2.60.40.60. 5 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. "A striking organization of a large family of human neural cadherin-like cell adhesion genes."
      Wu Q., Maniatis T.
      Cell 97:779-790(1999) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
    2. "The human and murine protocadherin-beta one-exon gene families show high evolutionary conservation, despite the difference in gene number."
      Vanhalst K., Kools P., Vanden Eynde E., van Roy F.
      FEBS Lett. 495:120-125(2001) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
    3. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
      Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
      , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
      Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
      Tissue: Brain.
    4. "The DNA sequence and comparative analysis of human chromosome 5."
      Schmutz J., Martin J., Terry A., Couronne O., Grimwood J., Lowry S., Gordon L.A., Scott D., Xie G., Huang W., Hellsten U., Tran-Gyamfi M., She X., Prabhakar S., Aerts A., Altherr M., Bajorek E., Black S.
      , Branscomb E., Caoile C., Challacombe J.F., Chan Y.M., Denys M., Detter J.C., Escobar J., Flowers D., Fotopulos D., Glavina T., Gomez M., Gonzales E., Goodstein D., Grigoriev I., Groza M., Hammon N., Hawkins T., Haydu L., Israni S., Jett J., Kadner K., Kimball H., Kobayashi A., Lopez F., Lou Y., Martinez D., Medina C., Morgan J., Nandkeshwar R., Noonan J.P., Pitluck S., Pollard M., Predki P., Priest J., Ramirez L., Retterer J., Rodriguez A., Rogers S., Salamov A., Salazar A., Thayer N., Tice H., Tsai M., Ustaszewska A., Vo N., Wheeler J., Wu K., Yang J., Dickson M., Cheng J.-F., Eichler E.E., Olsen A., Pennacchio L.A., Rokhsar D.S., Richardson P., Lucas S.M., Myers R.M., Rubin E.M.
      Nature 431:268-274(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    5. "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] (ISOFORM 1).
      Tissue: Placenta.

    Entry informationi

    Entry nameiPCDBB_HUMAN
    AccessioniPrimary (citable) accession number: Q9Y5F2
    Secondary accession number(s): B4DSF7, Q2M223
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 27, 2001
    Last sequence update: November 1, 1999
    Last modified: October 1, 2014
    This is version 117 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program
    DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Human chromosome 5
      Human chromosome 5: entries, gene names and cross-references to MIM
    2. Human entries with polymorphisms or disease mutations
      List of human entries with polymorphisms or disease mutations
    3. Human polymorphisms and disease mutations
      Index of human polymorphisms and disease mutations
    4. MIM cross-references
      Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
    5. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3