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P09027

- HXD3_MOUSE

UniProt

P09027 - HXD3_MOUSE

Protein

Homeobox protein Hox-D3

Gene

Hoxd3

Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 137 (01 Oct 2014)
      Sequence version 4 (03 Mar 2009)
      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.

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    DNA bindingi195 – 25460HomeoboxPROSITE-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. cell-matrix adhesion Source: Ensembl
    2. multicellular organismal development Source: UniProtKB-KW
    3. Notch signaling pathway Source: Ensembl
    4. positive regulation of gene expression Source: Ensembl
    5. 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-D3
    Alternative name(s):
    Homeobox protein Hox-4.1
    Homeobox protein MH-19
    Gene namesi
    Name:Hoxd3
    Synonyms:Hox-4.1, Hoxd-3
    OrganismiMus musculus (Mouse)
    Taxonomic identifieri10090 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
    ProteomesiUP000000589: Chromosome 2

    Organism-specific databases

    MGIiMGI:96207. Hoxd3.

    Subcellular locationi

    GO - Cellular componenti

    1. nucleus Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 433433Homeobox protein Hox-D3PRO_0000200205Add
    BLAST

    Proteomic databases

    PRIDEiP09027.

    PTM databases

    PhosphoSiteiP09027.

    Expressioni

    Tissue specificityi

    Detected in adult kidney, but not in other adult tissues tested.1 Publication

    Developmental stagei

    Detected in 12-, 14-, and 17-day-old mouse embryos in the posterior half of the myelencephalon, spinal cord, dorsal root ganglia, first cervical vertebra, thyroid gland, kidney tubules, esophagus, stomach, and intestines.1 Publication

    Gene expression databases

    ArrayExpressiP09027.
    BgeeiP09027.
    CleanExiMM_HOXD3.
    GenevestigatoriP09027.

    Interactioni

    Protein-protein interaction databases

    BioGridi200396. 4 interactions.

    Structurei

    3D structure databases

    ProteinModelPortaliP09027.
    SMRiP09027. Positions 197-254.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Motif

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Motifi161 – 1666Antp-type hexapeptide

    Sequence similaritiesi

    Belongs to the Antp homeobox family.Curated
    Contains 1 homeobox DNA-binding domain.PROSITE-ProRule annotation

    Keywords - Domaini

    Homeobox

    Phylogenomic databases

    eggNOGiNOG284589.
    HOGENOMiHOG000252944.
    HOVERGENiHBG107984.
    InParanoidiP09027.
    KOiK09303.
    OMAiIFECETR.
    OrthoDBiEOG754HPS.
    PhylomeDBiP09027.
    TreeFamiTF315938.

    Family and domain databases

    Gene3Di1.10.10.60. 1 hit.
    InterProiIPR025281. DUF4074.
    IPR001827. Homeobox_Antennapedia_CS.
    IPR017970. Homeobox_CS.
    IPR001356. Homeobox_dom.
    IPR020479. Homeobox_metazoa.
    IPR009057. Homeodomain-like.
    [Graphical view]
    PfamiPF13293. DUF4074. 1 hit.
    PF00046. Homeobox. 1 hit.
    [Graphical view]
    PRINTSiPR00024. 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.

    P09027-1 [UniParc]FASTAAdd to Basket

    « Hide

    MLFEQGQLTL ELPECTMQKA AYYENPGLFG GYGYSKATDT YGYSTPHQPY    50
    PPPAAANSLD SDYPSSACSI QSSAPLRAPA HKGAELNGSC MRPGTGNSQG 100
    GGGGNQPPGL NSEQQPPQPP PPPPPTLPPS SPTNPGSGVP AKKTKGGLSA 150
    SSSSSTISKQ IFPWMKESRQ NSKQKNSCAT SGENCEDKSP PGPASKRVRT 200
    AYTSAQLVEL EKEFHFNRYL CRPRRVEMAN LLNLTERQIK IWFQNRRMKY 250
    KKDQKAKGIL HSPAGQSPER SPPLGGAAGH VAYSGQLPPV PGLAYDAPSP 300
    PAFAKSQPNM YGLAAYTAPL SSCLPQQKRY PAPEFEPHPM ASNGGGFASA 350
    NLQGSPVYVG GNFVDSMAPT SGPVFNLGHL SHPSSASVDY SCAAQIPGNH 400
    HHGPCDPHPT YTDLSAHHSS QGRLPEAPKL THL 433
    Length:433
    Mass (Da):45,976
    Last modified:March 3, 2009 - v4
    Checksum:i0BA0409A7F32F9E6
    GO

    Sequence cautioni

    The sequence CAA51975.1 differs from that shown. Reason: Frameshift at several positions.
    The sequence AAB60683.1 differs from that shown. Reason: Erroneous initiation.
    The sequence AAC52779.1 differs from that shown. Reason: Erroneous initiation.
    The sequence AAC52780.1 differs from that shown. Reason: Erroneous initiation.
    The sequence BAE23694.1 differs from that shown. Reason: Erroneous initiation.

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti187 – 1871D → N(PubMed:2890503)Curated
    Sequence conflicti187 – 1871D → N in AAA37846. 1 PublicationCurated
    Sequence conflicti192 – 1921G → D(PubMed:2890503)Curated
    Sequence conflicti192 – 1921G → D in AAA37846. 1 PublicationCurated
    Sequence conflicti201 – 2011A → T(PubMed:2890503)Curated
    Sequence conflicti201 – 2011A → T in AAA37846. 1 PublicationCurated
    Sequence conflicti289 – 2891Missing in CAA51975. (PubMed:7710686)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U03485, U03496 Genomic DNA. Translation: AAB60683.1. Different initiation.
    X73573 mRNA. Translation: CAA51975.1. Sequence problems.
    L24363 Genomic DNA. Translation: AAA37855.1.
    U56400 mRNA. Translation: AAC52779.1. Different initiation.
    U56401 Genomic DNA. Translation: AAC52780.1. Different initiation.
    AK138525 mRNA. Translation: BAE23694.1. Different initiation.
    M18169 Genomic DNA. Translation: AAA37846.1. Sequence problems.
    CCDSiCCDS38149.1.
    PIRiD29585.
    S34164.
    S47539.
    RefSeqiNP_034598.2. NM_010468.2.
    UniGeneiMm.430708.

    Genome annotation databases

    EnsembliENSMUST00000047830; ENSMUSP00000044809; ENSMUSG00000079277.
    ENSMUST00000053932; ENSMUSP00000051355; ENSMUSG00000079277.
    ENSMUST00000111982; ENSMUSP00000107613; ENSMUSG00000079277.
    ENSMUST00000111983; ENSMUSP00000107614; ENSMUSG00000079277.
    GeneIDi15434.
    KEGGimmu:15434.
    UCSCiuc008kee.1. mouse.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U03485 , U03496 Genomic DNA. Translation: AAB60683.1 . Different initiation.
    X73573 mRNA. Translation: CAA51975.1 . Sequence problems.
    L24363 Genomic DNA. Translation: AAA37855.1 .
    U56400 mRNA. Translation: AAC52779.1 . Different initiation.
    U56401 Genomic DNA. Translation: AAC52780.1 . Different initiation.
    AK138525 mRNA. Translation: BAE23694.1 . Different initiation.
    M18169 Genomic DNA. Translation: AAA37846.1 . Sequence problems.
    CCDSi CCDS38149.1.
    PIRi D29585.
    S34164.
    S47539.
    RefSeqi NP_034598.2. NM_010468.2.
    UniGenei Mm.430708.

    3D structure databases

    ProteinModelPortali P09027.
    SMRi P09027. Positions 197-254.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 200396. 4 interactions.

    PTM databases

    PhosphoSitei P09027.

    Proteomic databases

    PRIDEi P09027.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSMUST00000047830 ; ENSMUSP00000044809 ; ENSMUSG00000079277 .
    ENSMUST00000053932 ; ENSMUSP00000051355 ; ENSMUSG00000079277 .
    ENSMUST00000111982 ; ENSMUSP00000107613 ; ENSMUSG00000079277 .
    ENSMUST00000111983 ; ENSMUSP00000107614 ; ENSMUSG00000079277 .
    GeneIDi 15434.
    KEGGi mmu:15434.
    UCSCi uc008kee.1. mouse.

    Organism-specific databases

    CTDi 3232.
    MGIi MGI:96207. Hoxd3.

    Phylogenomic databases

    eggNOGi NOG284589.
    HOGENOMi HOG000252944.
    HOVERGENi HBG107984.
    InParanoidi P09027.
    KOi K09303.
    OMAi IFECETR.
    OrthoDBi EOG754HPS.
    PhylomeDBi P09027.
    TreeFami TF315938.

    Miscellaneous databases

    NextBioi 288206.
    PROi P09027.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi P09027.
    Bgeei P09027.
    CleanExi MM_HOXD3.
    Genevestigatori P09027.

    Family and domain databases

    Gene3Di 1.10.10.60. 1 hit.
    InterProi IPR025281. DUF4074.
    IPR001827. Homeobox_Antennapedia_CS.
    IPR017970. Homeobox_CS.
    IPR001356. Homeobox_dom.
    IPR020479. Homeobox_metazoa.
    IPR009057. Homeodomain-like.
    [Graphical view ]
    Pfami PF13293. DUF4074. 1 hit.
    PF00046. Homeobox. 1 hit.
    [Graphical view ]
    PRINTSi 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. "The nucleotide sequence of the murine Hox-D3 (Hox-4.1) gene reveals extensive identity with the human protein."
      Brown W.M., Zhou L., Taylor G.R.
      Biochim. Biophys. Acta 1219:219-222(1994) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    2. "Analysis of the Hoxd-3 gene: structure and localization of its sense and natural antisense transcripts."
      Bedford M., Orr-Urtreger A., Arman E., Lonai P.
      DNA Cell Biol. 14:295-304(1995) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    3. "Sequence and expression of the murine Hoxd-3 homeobox gene."
      Tan D.-P., Shao X., Pu L., Guo V., Nirenberg M.
      Proc. Natl. Acad. Sci. U.S.A. 93:8247-8252(1996) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA], DEVELOPMENTAL STAGE, TISSUE SPECIFICITY.
      Strain: ICR X Swiss Webster.
      Tissue: Liver.
    4. "The transcriptional landscape of the mammalian genome."
      Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
      , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
      Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Strain: C57BL/6J.
      Tissue: Spinal cord.
    5. "New murine homeoboxes: structure, chromosomal assignment, and differential expression in adult erythropoiesis."
      Lonai P., Arman E., Czosnek H., Ruddle F.H., Blatt C.
      DNA 6:409-418(1987) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 182-303.
    6. Lonai P.
      Submitted (DEC-1987) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 179-335.

    Entry informationi

    Entry nameiHXD3_MOUSE
    AccessioniPrimary (citable) accession number: P09027
    Secondary accession number(s): Q3UUD3
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: November 1, 1988
    Last sequence update: March 3, 2009
    Last modified: October 1, 2014
    This is version 137 of the entry and version 4 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program

    Miscellaneousi

    Caution

    It is uncertain whether Met-1 or Met-17 is the initiator.Curated

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Vertebrate homeotic Hox proteins
      Nomenclature of vertebrate homeotic Hox proteins and list of entries
    2. MGD cross-references
      Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3