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Q9NRJ7

- PCDBG_HUMAN

UniProt

Q9NRJ7 - PCDBG_HUMAN

Protein

Protocadherin beta-16

Gene

PCDHB16

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 121 (01 Oct 2014)
      Sequence version 3 (05 Oct 2010)
      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. homophilic cell adhesion Source: InterPro
    3. synapse assembly Source: UniProtKB
    4. synaptic transmission Source: UniProtKB

    Keywords - Biological processi

    Cell adhesion

    Keywords - Ligandi

    Calcium

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Protocadherin beta-16
    Short name:
    PCDH-beta-16
    Alternative name(s):
    Protocadherin-3X
    Gene namesi
    Name:PCDHB16
    Synonyms:KIAA1621, PCDH3X
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 5

    Organism-specific databases

    HGNCiHGNC:14546. PCDHB16.

    Subcellular locationi

    Membrane By similarity; Single-pass type I membrane protein By similarity

    GO - Cellular componenti

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

    Keywords - Cellular componenti

    Membrane

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA33032.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Signal peptidei1 – 2828Sequence AnalysisAdd
    BLAST
    Chaini29 – 776748Protocadherin beta-16PRO_0000003944Add
    BLAST

    Amino acid modifications

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

    Keywords - PTMi

    Glycoprotein

    Proteomic databases

    PaxDbiQ9NRJ7.
    PRIDEiQ9NRJ7.

    PTM databases

    PhosphoSiteiQ9NRJ7.

    Expressioni

    Gene expression databases

    BgeeiQ9NRJ7.
    CleanExiHS_PCDHB16.
    GenevestigatoriQ9NRJ7.

    Organism-specific databases

    HPAiHPA014668.
    HPA016475.

    Structurei

    3D structure databases

    ProteinModelPortaliQ9NRJ7.
    SMRiQ9NRJ7. Positions 32-677.
    ModBaseiSearch...
    MobiDBiSearch...

    Topological domain

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Topological domaini29 – 690662ExtracellularSequence AnalysisAdd
    BLAST
    Topological domaini712 – 77665CytoplasmicSequence 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.
    HOGENOMiHOG000220892.
    HOVERGENiHBG054878.
    InParanoidiQ9NRJ7.
    KOiK16494.
    OMAiEHNITVQ.
    OrthoDBiEOG7KSX80.
    PhylomeDBiQ9NRJ7.
    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. 5 hits.
    [Graphical view]
    SUPFAMiSSF49313. SSF49313. 6 hits.
    PROSITEiPS00232. CADHERIN_1. 5 hits.
    PS50268. CADHERIN_2. 6 hits.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

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

    Q9NRJ7-1 [UniParc]FASTAAdd to Basket

    « Hide

    MEIGWMHNRR QRQVLVFFVL LSLSGAGAEL GSYSVVEETE RGSFVANLGK    50
    DLGLGLTEMS TRKARIISQG NKQHLQLKAQ TGDLLINEKL DREELCGPTE 100
    PCILHFQVLM ENPLEIFQAE LRVIDINDHS PMFTEKEMIL KIPENSPLGT 150
    EFPLNHALDL DVGSNNVQNY KISPSSHFRV LIHEFRDGRK YPELVLDKEL 200
    DREEEPQLRL TLTALDGGSP PRSGTAQVRI EVVDINDNAP EFEQPIYKVQ 250
    IPENSPLGSL VATVSARDLD GGANGKISYT LFQPSEDISK TLEVNPMTGE 300
    VRLRKQVDFE MVTSYEVRIK ATDGGGLSGK CTLLLQVVDV NDNPPQVTMS 350
    ALTSPIPENS PEIVVAVFSV SDPDSGNNGK TISSIQEDLP FLLKPSVKNF 400
    YTLVTERALD REARAEYNIT LTVTDMGTPR LKTEHNITVQ ISDVNDNAPT 450
    FTQTSYTLFV RENNSPALHI GSVSATDRDS GTNAQVTYSL LPPQDPHLPL 500
    ASLVSINADN GHLFALRSLD YEALREFEFR VSATDRGSPA LSSEALVRVL 550
    VLDANDNSPF VLYPLQNGSA PCTELVPRAA EPGYLVTKVV AVDGDSGQNA 600
    WLSYQLLKAT EPGLFGVWAH NGEVRTARLL SERDAAKQRL VVLVKDNGEP 650
    PRSATATLHV LLVDGFSQPF LPLPEAAPGQ TQANSLTVYL VVALASVSSL 700
    FLFSVLLFVA VRLCRRSRAA SVGRCSMPEG PFPGRLVDVS GTGTLSQSYQ 750
    YEVCLTGGSE TSEFKFLKPI IPNFSP 776
    Length:776
    Mass (Da):84,983
    Last modified:October 5, 2010 - v3
    Checksum:i03F420D3098D6032
    GO

    Sequence cautioni

    The sequence BAB13447.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti357 – 3571P → A in AAH36062. (PubMed:15489334)Curated
    Sequence conflicti482 – 4821T → I in BAB13447. (PubMed:10997877)Curated
    Sequence conflicti526 – 5261E → A in AAF81914. (PubMed:11322959)Curated
    Sequence conflicti526 – 5261E → A in AAG10030. (PubMed:11322959)Curated
    Sequence conflicti526 – 5261E → A in AAH36062. (PubMed:15489334)Curated
    Sequence conflicti543 – 5431S → R in AAF81914. (PubMed:11322959)Curated
    Sequence conflicti543 – 5431S → R in AAG10030. (PubMed:11322959)Curated
    Sequence conflicti543 – 5431S → R in AAH36062. (PubMed:15489334)Curated
    Sequence conflicti560 – 5601F → L in AAH36062. (PubMed:15489334)Curated
    Sequence conflicti638 – 6381Q → H in BAB13447. (PubMed:10997877)Curated
    Sequence conflicti652 – 6521R → C in BAB13447. (PubMed:10997877)Curated
    Sequence conflicti710 – 7101A → V in BAB13447. (PubMed:10997877)Curated

    Natural variant

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti91 – 911D → E.
    Corresponds to variant rs17096969 [ dbSNP | Ensembl ].
    VAR_055587
    Natural varianti347 – 3471V → L.
    Corresponds to variant rs28664170 [ dbSNP | Ensembl ].
    VAR_061068
    Natural varianti508 – 5081A → T.
    Corresponds to variant rs56327450 [ dbSNP | Ensembl ].
    VAR_061069
    Natural varianti525 – 5251R → Q.2 Publications
    Corresponds to variant rs17844651 [ dbSNP | Ensembl ].
    VAR_026478
    Natural varianti532 – 5321S → G.2 Publications
    Corresponds to variant rs2697532 [ dbSNP | Ensembl ].
    VAR_026479

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF217757 mRNA. Translation: AAF81914.1.
    AF282973 Genomic DNA. Translation: AAG10030.1.
    AY013878 mRNA. Translation: AAK21988.1.
    AB046841 mRNA. Translation: BAB13447.1. Different initiation.
    AK056460 mRNA. Translation: BAG51717.1.
    AC074130 Genomic DNA. No translation available.
    CH471062 Genomic DNA. Translation: EAW61975.1.
    BC036062 mRNA. Translation: AAH36062.1.
    CCDSiCCDS4251.1.
    RefSeqiNP_066008.2. NM_020957.3.
    UniGeneiHs.147674.
    Hs.582172.

    Genome annotation databases

    EnsembliENST00000609684; ENSP00000477314; ENSG00000272674.
    GeneIDi57717.
    KEGGihsa:57717.
    UCSCiuc003liv.3. human.

    Polymorphism databases

    DMDMi308153560.

    Keywords - Coding sequence diversityi

    Polymorphism

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF217757 mRNA. Translation: AAF81914.1 .
    AF282973 Genomic DNA. Translation: AAG10030.1 .
    AY013878 mRNA. Translation: AAK21988.1 .
    AB046841 mRNA. Translation: BAB13447.1 . Different initiation.
    AK056460 mRNA. Translation: BAG51717.1 .
    AC074130 Genomic DNA. No translation available.
    CH471062 Genomic DNA. Translation: EAW61975.1 .
    BC036062 mRNA. Translation: AAH36062.1 .
    CCDSi CCDS4251.1.
    RefSeqi NP_066008.2. NM_020957.3.
    UniGenei Hs.147674.
    Hs.582172.

    3D structure databases

    ProteinModelPortali Q9NRJ7.
    SMRi Q9NRJ7. Positions 32-677.
    ModBasei Search...
    MobiDBi Search...

    PTM databases

    PhosphoSitei Q9NRJ7.

    Polymorphism databases

    DMDMi 308153560.

    Proteomic databases

    PaxDbi Q9NRJ7.
    PRIDEi Q9NRJ7.

    Protocols and materials databases

    DNASUi 57717.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000609684 ; ENSP00000477314 ; ENSG00000272674 .
    GeneIDi 57717.
    KEGGi hsa:57717.
    UCSCi uc003liv.3. human.

    Organism-specific databases

    CTDi 57717.
    GeneCardsi GC05P140561.
    HGNCi HGNC:14546. PCDHB16.
    HPAi HPA014668.
    HPA016475.
    MIMi 604967. gene.
    606345. gene.
    neXtProti NX_Q9NRJ7.
    PharmGKBi PA33032.
    HUGEi Search...
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi NOG251260.
    HOGENOMi HOG000220892.
    HOVERGENi HBG054878.
    InParanoidi Q9NRJ7.
    KOi K16494.
    OMAi EHNITVQ.
    OrthoDBi EOG7KSX80.
    PhylomeDBi Q9NRJ7.
    TreeFami TF332299.

    Miscellaneous databases

    GeneWikii PCDHB16.
    GenomeRNAii 57717.
    NextBioi 64644.
    PROi Q9NRJ7.
    SOURCEi Search...

    Gene expression databases

    Bgeei Q9NRJ7.
    CleanExi HS_PCDHB16.
    Genevestigatori Q9NRJ7.

    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. 5 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. "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 [GENOMIC DNA / MRNA], VARIANTS GLN-525 AND GLY-532.
    2. "Comparative DNA sequence analysis of mouse and human protocadherin gene clusters."
      Wu Q., Zhang T., Cheng J.-F., Kim Y., Grimwood J., Schmutz J., Dickson M., Noonan J.P., Zhang M.Q., Myers R.M., Maniatis T.
      Genome Res. 11:389-404(2001) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    3. "Prediction of the coding sequences of unidentified human genes. XVIII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro."
      Nagase T., Kikuno R., Nakayama M., Hirosawa M., Ohara O.
      DNA Res. 7:273-281(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Tissue: Brain.
    4. "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].
    5. "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].
    6. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    7. "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], VARIANTS GLN-525 AND GLY-532.
      Tissue: Brain.
    8. "Exploring proteomes and analyzing protein processing by mass spectrometric identification of sorted N-terminal peptides."
      Gevaert K., Goethals M., Martens L., Van Damme J., Staes A., Thomas G.R., Vandekerckhove J.
      Nat. Biotechnol. 21:566-569(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: PROTEIN SEQUENCE OF 518-525.
      Tissue: Platelet.

    Entry informationi

    Entry nameiPCDBG_HUMAN
    AccessioniPrimary (citable) accession number: Q9NRJ7
    Secondary accession number(s): B3KPK5
    , Q8IYD5, Q96SE9, Q9HCF1
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 27, 2001
    Last sequence update: October 5, 2010
    Last modified: October 1, 2014
    This is version 121 of the entry and version 3 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, Direct protein sequencing, 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