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P47902

- CDX1_HUMAN

UniProt

P47902 - CDX1_HUMAN

Protein

Homeobox protein CDX-1

Gene

CDX1

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 133 (01 Oct 2014)
      Sequence version 2 (17 Oct 2006)
      Previous versions | rss
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    Functioni

    Could play a role in the terminal differentiation of the intestine.

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    DNA bindingi154 – 21360HomeoboxPROSITE-ProRule annotationAdd
    BLAST

    GO - Molecular functioni

    1. protein binding Source: IntAct
    2. RNA polymerase II distal enhancer sequence-specific DNA binding Source: NTNU_SB
    3. RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription Source: NTNU_SB

    GO - Biological processi

    1. anterior/posterior pattern specification Source: Ensembl
    2. bone morphogenesis Source: Ensembl
    3. organ morphogenesis Source: ProtInc
    4. positive regulation of transcription from RNA polymerase II promoter Source: NTNU_SB

    Keywords - Molecular functioni

    Developmental protein

    Keywords - Ligandi

    DNA-binding

    Enzyme and pathway databases

    SignaLinkiP47902.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Homeobox protein CDX-1
    Alternative name(s):
    Caudal-type homeobox protein 1
    Gene namesi
    Name:CDX1
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 5

    Organism-specific databases

    HGNCiHGNC:1805. CDX1.

    Subcellular locationi

    GO - Cellular componenti

    1. nucleus Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Nucleus

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA26351.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 265265Homeobox protein CDX-1PRO_0000048846Add
    BLAST

    Proteomic databases

    PaxDbiP47902.
    PRIDEiP47902.

    PTM databases

    PhosphoSiteiP47902.

    Expressioni

    Tissue specificityi

    Intestinal epithelium.

    Gene expression databases

    BgeeiP47902.
    CleanExiHS_CDX1.
    GenevestigatoriP47902.

    Organism-specific databases

    HPAiHPA055196.

    Interactioni

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    CEBPAP497153EBI-8514176,EBI-1172054

    Protein-protein interaction databases

    BioGridi107474. 3 interactions.
    IntActiP47902. 1 interaction.
    MINTiMINT-6800278.
    STRINGi9606.ENSP00000231656.

    Structurei

    3D structure databases

    ProteinModelPortaliP47902.
    SMRiP47902. Positions 130-214.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi143 – 1497Poly-Gly
    Compositional biasi217 – 2215Poly-Gln

    Sequence similaritiesi

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

    Keywords - Domaini

    Homeobox

    Phylogenomic databases

    eggNOGiNOG291290.
    HOGENOMiHOG000115975.
    HOVERGENiHBG005302.
    InParanoidiP47902.
    KOiK09312.
    OMAiYSHVEPG.
    OrthoDBiEOG71P2BK.
    PhylomeDBiP47902.
    TreeFamiTF351605.

    Family and domain databases

    Gene3Di1.10.10.60. 1 hit.
    InterProiIPR006820. Caudal_activation_dom.
    IPR017970. Homeobox_CS.
    IPR001356. Homeobox_dom.
    IPR020479. Homeobox_metazoa.
    IPR009057. Homeodomain-like.
    IPR000047. HTH_motif.
    [Graphical view]
    PfamiPF04731. Caudal_act. 1 hit.
    PF00046. Homeobox. 1 hit.
    [Graphical view]
    PRINTSiPR00024. HOMEOBOX.
    PR00031. HTHREPRESSR.
    SMARTiSM00389. HOX. 1 hit.
    [Graphical view]
    SUPFAMiSSF46689. SSF46689. 1 hit.
    PROSITEiPS00027. HOMEOBOX_1. 1 hit.
    PS50071. HOMEOBOX_2. 1 hit.
    [Graphical view]

    Sequences (2)i

    Sequence statusi: Complete.

    This entry describes 2 isoformsi produced by alternative splicing. Align

    Isoform 1 (identifier: P47902-1) [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

    MYVGYVLDKD SPVYPGPARP ASLGLGPQAY GPPAPPPAPP QYPDFSSYSH    50
    VEPAPAPPTA WGAPFPAPKD DWAAAYGPGP AAPAASPASL AFGPPPDFSP 100
    VPAPPGPGPG LLAQPLGGPG TPSSPGAQRP TPYEWMRRSV AAGGGGGSGK 150
    TRTKDKYRVV YTDHQRLELE KEFHYSRYIT IRRKSELAAN LGLTERQVKI 200
    WFQNRRAKER KVNKKKQQQQ QPPQPPMAHD ITATPAGPSL GGLCPSNTSL 250
    LATSSPMPVK EEFLP 265
    Length:265
    Mass (Da):28,138
    Last modified:October 17, 2006 - v2
    Checksum:i484CB284E3357BC6
    GO
    Isoform 2 (identifier: P47902-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         1-135: Missing.

    Show »
    Length:130
    Mass (Da):14,661
    Checksum:i12D213E8A3BB7CFE
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti28 – 292QA → AN in AAA80284. (PubMed:8530027)Curated
    Sequence conflicti28 – 292QA → AN in AAC50237. (PubMed:8530027)Curated
    Sequence conflicti28 – 292QA → AN in AAB40602. (PubMed:9036867)Curated

    Natural variant

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti130 – 1301P → R.
    Corresponds to variant rs2302275 [ dbSNP | Ensembl ].
    VAR_020149

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei1 – 135135Missing in isoform 2. 1 PublicationVSP_021030Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U16360 Genomic DNA. Translation: AAA80284.1.
    U15212 mRNA. Translation: AAC50237.1.
    U51095 mRNA. Translation: AAB40602.1.
    AF239666 mRNA. Translation: AAF61234.1.
    BC096251 mRNA. Translation: AAH96251.1.
    CCDSiCCDS4304.1. [P47902-1]
    PIRiI38868.
    I38881.
    RefSeqiNP_001795.2. NM_001804.2. [P47902-1]
    UniGeneiHs.1545.

    Genome annotation databases

    EnsembliENST00000231656; ENSP00000231656; ENSG00000113722. [P47902-1]
    GeneIDi1044.
    KEGGihsa:1044.
    UCSCiuc003lrq.3. human. [P47902-1]

    Polymorphism databases

    DMDMi116241291.

    Keywords - Coding sequence diversityi

    Alternative splicing, Polymorphism

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U16360 Genomic DNA. Translation: AAA80284.1 .
    U15212 mRNA. Translation: AAC50237.1 .
    U51095 mRNA. Translation: AAB40602.1 .
    AF239666 mRNA. Translation: AAF61234.1 .
    BC096251 mRNA. Translation: AAH96251.1 .
    CCDSi CCDS4304.1. [P47902-1 ]
    PIRi I38868.
    I38881.
    RefSeqi NP_001795.2. NM_001804.2. [P47902-1 ]
    UniGenei Hs.1545.

    3D structure databases

    ProteinModelPortali P47902.
    SMRi P47902. Positions 130-214.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 107474. 3 interactions.
    IntActi P47902. 1 interaction.
    MINTi MINT-6800278.
    STRINGi 9606.ENSP00000231656.

    PTM databases

    PhosphoSitei P47902.

    Polymorphism databases

    DMDMi 116241291.

    Proteomic databases

    PaxDbi P47902.
    PRIDEi P47902.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000231656 ; ENSP00000231656 ; ENSG00000113722 . [P47902-1 ]
    GeneIDi 1044.
    KEGGi hsa:1044.
    UCSCi uc003lrq.3. human. [P47902-1 ]

    Organism-specific databases

    CTDi 1044.
    GeneCardsi GC05P149526.
    HGNCi HGNC:1805. CDX1.
    HPAi HPA055196.
    MIMi 600746. gene.
    neXtProti NX_P47902.
    PharmGKBi PA26351.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi NOG291290.
    HOGENOMi HOG000115975.
    HOVERGENi HBG005302.
    InParanoidi P47902.
    KOi K09312.
    OMAi YSHVEPG.
    OrthoDBi EOG71P2BK.
    PhylomeDBi P47902.
    TreeFami TF351605.

    Enzyme and pathway databases

    SignaLinki P47902.

    Miscellaneous databases

    GeneWikii CDX1.
    GenomeRNAii 1044.
    NextBioi 4377.
    PROi P47902.
    SOURCEi Search...

    Gene expression databases

    Bgeei P47902.
    CleanExi HS_CDX1.
    Genevestigatori P47902.

    Family and domain databases

    Gene3Di 1.10.10.60. 1 hit.
    InterProi IPR006820. Caudal_activation_dom.
    IPR017970. Homeobox_CS.
    IPR001356. Homeobox_dom.
    IPR020479. Homeobox_metazoa.
    IPR009057. Homeodomain-like.
    IPR000047. HTH_motif.
    [Graphical view ]
    Pfami PF04731. Caudal_act. 1 hit.
    PF00046. Homeobox. 1 hit.
    [Graphical view ]
    PRINTSi PR00024. HOMEOBOX.
    PR00031. HTHREPRESSR.
    SMARTi SM00389. HOX. 1 hit.
    [Graphical view ]
    SUPFAMi SSF46689. SSF46689. 1 hit.
    PROSITEi PS00027. HOMEOBOX_1. 1 hit.
    PS50071. HOMEOBOX_2. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Isolation, characterization, and precise physical localization of human CDX1, a caudal-type homeobox gene."
      Bonner C.A., Lofus S.K., Wasmuth J.J.
      Genomics 28:206-211(1995) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA] (ISOFORM 1).
      Tissue: Small intestine.
    2. "Molecular cloning, sequencing and expression of the mRNA encoding human Cdx1 and Cdx2 homeobox. Down-regulation of Cdx1 and Cdx2 mRNA expression during colorectal carcinogenesis."
      Mallo G.V., Rechreche H., Frigerio J.-M., Rocha D., Zweibaum A., Lacasa M., Jordan B.R., Dusetti N.J., Dagorn J.-C., Iovanna J.L.
      Int. J. Cancer 74:35-44(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
      Tissue: Colon carcinoma.
    3. "Molecular cloning and sequencing of the human CDX1 homeobox gene."
      Malakooti J.
      Submitted (FEB-2000) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
    4. "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 2).

    Entry informationi

    Entry nameiCDX1_HUMAN
    AccessioniPrimary (citable) accession number: P47902
    Secondary accession number(s): Q4VAU4, Q9NYK8
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: February 1, 1996
    Last sequence update: October 17, 2006
    Last modified: October 1, 2014
    This is version 133 of the entry and version 2 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