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Q9PWL5

- HXA4A_DANRE

UniProt

Q9PWL5 - HXA4A_DANRE

Protein

Homeobox protein Hox-A4a

Gene

hoxa4a

Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 96 (01 Oct 2014)
      Sequence version 2 (11 Jul 2006)
      Previous versions | rss
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    Functioni

    Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis.By similarity

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    DNA bindingi147 – 20660HomeoboxPROSITE-ProRule annotationAdd
    BLAST

    GO - Molecular functioni

    1. sequence-specific DNA binding Source: InterPro
    2. sequence-specific DNA binding transcription factor activity Source: InterPro

    GO - Biological processi

    1. multicellular organismal development Source: UniProtKB-KW
    2. transcription, DNA-templated Source: UniProtKB-KW

    Keywords - Molecular functioni

    Developmental protein

    Keywords - Biological processi

    Transcription, Transcription regulation

    Keywords - Ligandi

    DNA-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Homeobox protein Hox-A4a
    Alternative name(s):
    Homeobox protein Zf-26
    Hoxx4
    Gene namesi
    Name:hoxa4a
    Synonyms:hoxx4, zf26
    OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
    Taxonomic identifieri7955 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio
    ProteomesiUP000000437: Chromosome 19

    Organism-specific databases

    ZFINiZDB-GENE-000823-4. hoxa4a.

    Subcellular locationi

    Nucleus PROSITE-ProRule annotation

    GO - Cellular componenti

    1. nucleus Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 245245Homeobox protein Hox-A4aPRO_0000200053Add
    BLAST

    Expressioni

    Developmental stagei

    First expressed at the 1-somite stage. At the 10-somite stage, weakly expressed in the paraxial mesoderm with an anterior expression limit at somite 1. At the 20-somite stage, expressed within the developing CNS with an anterior expression limit adjacent to the rhombomere 7/8 boundary.2 Publications

    Gene expression databases

    BgeeiQ9PWL5.

    Structurei

    3D structure databases

    ProteinModelPortaliQ9PWL5.
    SMRiQ9PWL5. Positions 120-207.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Motif

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Motifi126 – 1316Antp-type hexapeptide

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi231 – 2344Poly-Gln

    Sequence similaritiesi

    Contains 1 homeobox DNA-binding domain.PROSITE-ProRule annotation

    Keywords - Domaini

    Homeobox

    Phylogenomic databases

    eggNOGiNOG317510.
    GeneTreeiENSGT00750000117486.
    HOGENOMiHOG000231179.
    HOVERGENiHBG016849.
    InParanoidiQ9PWL5.
    OMAiSDGHHAQ.
    OrthoDBiEOG780RP4.
    PhylomeDBiQ9PWL5.
    TreeFamiTF352857.

    Family and domain databases

    Gene3Di1.10.10.60. 1 hit.
    InterProiIPR017995. Homeobox_antennapedia.
    IPR001827. Homeobox_Antennapedia_CS.
    IPR017970. Homeobox_CS.
    IPR001356. Homeobox_dom.
    IPR020479. Homeobox_metazoa.
    IPR009057. Homeodomain-like.
    [Graphical view]
    PfamiPF00046. Homeobox. 1 hit.
    [Graphical view]
    PRINTSiPR00025. ANTENNAPEDIA.
    PR00024. HOMEOBOX.
    SMARTiSM00389. HOX. 1 hit.
    [Graphical view]
    SUPFAMiSSF46689. SSF46689. 1 hit.
    PROSITEiPS00032. ANTENNAPEDIA. 1 hit.
    PS00027. HOMEOBOX_1. 1 hit.
    PS50071. HOMEOBOX_2. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q9PWL5-1 [UniParc]FASTAAdd to Basket

    « Hide

    MIMSSYLINS NYIEPSFPPC EEYHQNGYMP VSSDYYERPK DPGFPHHEEA    50
    SYPRSNYQEQ SYDYGNVSTN DLNDFSDRHH AQPQSVSQNH GPRLTTESCV 100
    GSDGNKDCSL VSDALPGSQK SKEPVVYPWM KKVHVNTVTA SYSGGVPKRS 150
    RTAYTRQQAL ELEKEFHFNR YLTRRRRVEI AHTMCLSERQ VKIWFQNRRM 200
    KWKKDHKLPN TKIRSSSSAP SNHHVKTDAT QQQQTLLPTP CSSNL 245
    Length:245
    Mass (Da):28,288
    Last modified:July 11, 2006 - v2
    Checksum:i1AF7F6F0C13B4F10
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti214 – 23219RSSSS…DATQQ → APRALHPPTITWKRTPLS in AAD15939. (PubMed:9831563)CuratedAdd
    BLAST
    Sequence conflicti226 – 2261K → E in CAA74285. (PubMed:9425135)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF071246 Genomic DNA. Translation: AAD15939.1.
    CR382300 Genomic DNA. Translation: CAK10850.1.
    BC122457 mRNA. Translation: AAI22458.1.
    DQ060533 mRNA. Translation: AAY67911.1.
    M76382 Genomic DNA. Translation: AAA50034.1.
    Y13947 mRNA. Translation: CAA74285.1.
    PIRiS34415.
    RefSeqiNP_571610.1. NM_131535.1.
    UniGeneiDr.159437.

    Genome annotation databases

    EnsembliENSDART00000080466; ENSDARP00000074915; ENSDARG00000036231.
    GeneIDi58050.
    KEGGidre:58050.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF071246 Genomic DNA. Translation: AAD15939.1 .
    CR382300 Genomic DNA. Translation: CAK10850.1 .
    BC122457 mRNA. Translation: AAI22458.1 .
    DQ060533 mRNA. Translation: AAY67911.1 .
    M76382 Genomic DNA. Translation: AAA50034.1 .
    Y13947 mRNA. Translation: CAA74285.1 .
    PIRi S34415.
    RefSeqi NP_571610.1. NM_131535.1.
    UniGenei Dr.159437.

    3D structure databases

    ProteinModelPortali Q9PWL5.
    SMRi Q9PWL5. Positions 120-207.
    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSDART00000080466 ; ENSDARP00000074915 ; ENSDARG00000036231 .
    GeneIDi 58050.
    KEGGi dre:58050.

    Organism-specific databases

    CTDi 58050.
    ZFINi ZDB-GENE-000823-4. hoxa4a.

    Phylogenomic databases

    eggNOGi NOG317510.
    GeneTreei ENSGT00750000117486.
    HOGENOMi HOG000231179.
    HOVERGENi HBG016849.
    InParanoidi Q9PWL5.
    OMAi SDGHHAQ.
    OrthoDBi EOG780RP4.
    PhylomeDBi Q9PWL5.
    TreeFami TF352857.

    Miscellaneous databases

    NextBioi 20892314.

    Gene expression databases

    Bgeei Q9PWL5.

    Family and domain databases

    Gene3Di 1.10.10.60. 1 hit.
    InterProi IPR017995. Homeobox_antennapedia.
    IPR001827. Homeobox_Antennapedia_CS.
    IPR017970. Homeobox_CS.
    IPR001356. Homeobox_dom.
    IPR020479. Homeobox_metazoa.
    IPR009057. Homeodomain-like.
    [Graphical view ]
    Pfami PF00046. Homeobox. 1 hit.
    [Graphical view ]
    PRINTSi PR00025. ANTENNAPEDIA.
    PR00024. HOMEOBOX.
    SMARTi SM00389. HOX. 1 hit.
    [Graphical view ]
    SUPFAMi SSF46689. SSF46689. 1 hit.
    PROSITEi PS00032. ANTENNAPEDIA. 1 hit.
    PS00027. HOMEOBOX_1. 1 hit.
    PS50071. HOMEOBOX_2. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    2. "The zebrafish reference genome sequence and its relationship to the human genome."
      Howe K., Clark M.D., Torroja C.F., Torrance J., Berthelot C., Muffato M., Collins J.E., Humphray S., McLaren K., Matthews L., McLaren S., Sealy I., Caccamo M., Churcher C., Scott C., Barrett J.C., Koch R., Rauch G.J.
      , White S., Chow W., Kilian B., Quintais L.T., Guerra-Assuncao J.A., Zhou Y., Gu Y., Yen J., Vogel J.H., Eyre T., Redmond S., Banerjee R., Chi J., Fu B., Langley E., Maguire S.F., Laird G.K., Lloyd D., Kenyon E., Donaldson S., Sehra H., Almeida-King J., Loveland J., Trevanion S., Jones M., Quail M., Willey D., Hunt A., Burton J., Sims S., McLay K., Plumb B., Davis J., Clee C., Oliver K., Clark R., Riddle C., Eliott D., Threadgold G., Harden G., Ware D., Mortimer B., Kerry G., Heath P., Phillimore B., Tracey A., Corby N., Dunn M., Johnson C., Wood J., Clark S., Pelan S., Griffiths G., Smith M., Glithero R., Howden P., Barker N., Stevens C., Harley J., Holt K., Panagiotidis G., Lovell J., Beasley H., Henderson C., Gordon D., Auger K., Wright D., Collins J., Raisen C., Dyer L., Leung K., Robertson L., Ambridge K., Leongamornlert D., McGuire S., Gilderthorp R., Griffiths C., Manthravadi D., Nichol S., Barker G., Whitehead S., Kay M., Brown J., Murnane C., Gray E., Humphries M., Sycamore N., Barker D., Saunders D., Wallis J., Babbage A., Hammond S., Mashreghi-Mohammadi M., Barr L., Martin S., Wray P., Ellington A., Matthews N., Ellwood M., Woodmansey R., Clark G., Cooper J., Tromans A., Grafham D., Skuce C., Pandian R., Andrews R., Harrison E., Kimberley A., Garnett J., Fosker N., Hall R., Garner P., Kelly D., Bird C., Palmer S., Gehring I., Berger A., Dooley C.M., Ersan-Urun Z., Eser C., Geiger H., Geisler M., Karotki L., Kirn A., Konantz J., Konantz M., Oberlander M., Rudolph-Geiger S., Teucke M., Osoegawa K., Zhu B., Rapp A., Widaa S., Langford C., Yang F., Carter N.P., Harrow J., Ning Z., Herrero J., Searle S.M., Enright A., Geisler R., Plasterk R.H., Lee C., Westerfield M., de Jong P.J., Zon L.I., Postlethwait J.H., Nusslein-Volhard C., Hubbard T.J., Roest Crollius H., Rogers J., Stemple D.L.
      Nature 496:498-503(2013) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: Tuebingen.
    3. NIH - Zebrafish Gene Collection (ZGC) project
      Submitted (AUG-2006) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    4. "Genomic annotation and transcriptome analysis of the zebrafish (Danio rerio) hox complex with description of a novel member, hoxb13a."
      Corredor-Adamez M., Welten M.C.M., Spaink H.P., Jeffery J.E., Schoon R.T., de Bakker M.A.G., Bagowski C.P., Meijer A.H., Verbeek F.J., Richardson M.K.
      Evol. Dev. 7:362-375(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 68-148.
      Strain: Tuebingen.
    5. "A new antennepedia-class gene from the zebrafish."
      Runstadler J.A., Kocher T.D.
      Nucleic Acids Res. 19:5434-5434(1991) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 147-201.
    6. "Zebrafish hox genes: expression in the hindbrain region of wild-type and mutants of the segmentation gene, valentino."
      Prince V.E., Moens C.B., Kimmel C.B., Ho R.K.
      Development 125:393-406(1998) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 157-245, DEVELOPMENTAL STAGE.
      Tissue: Embryo.
    7. "Zebrafish hox genes: genomic organization and modified colinear expression patterns in the trunk."
      Prince V.E., Joly L., Ekker M., Ho R.K.
      Development 125:407-420(1998) [PubMed] [Europe PMC] [Abstract]
      Cited for: DEVELOPMENTAL STAGE.

    Entry informationi

    Entry nameiHXA4A_DANRE
    AccessioniPrimary (citable) accession number: Q9PWL5
    Secondary accession number(s): O42371
    , Q05784, Q0P3T8, Q1L970, Q4PRB0
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: February 1, 2005
    Last sequence update: July 11, 2006
    Last modified: October 1, 2014
    This is version 96 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. Vertebrate homeotic Hox proteins
      Nomenclature of vertebrate homeotic Hox proteins and list of entries
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3