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Q9Y2T7

- YBOX2_HUMAN

UniProt

Q9Y2T7 - YBOX2_HUMAN

Protein

Y-box-binding protein 2

Gene

YBX2

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 107 (01 Oct 2014)
      Sequence version 2 (17 Oct 2006)
      Previous versions | rss
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    Functioni

    Major constituent of messenger ribonucleoprotein particles (mRNPs). Involved in the regulation of the stability and/or translation of germ cell mRNAs. Binds to Y-box consensus promoter element. Binds to full length mRNA with high affinity in a sequence-independent manner. Binds to short RNA sequences containing the consensus site 5'-UCCAUCA-3' with low affinity and limited sequence specificity. Its binding with maternal mRNAs is necessary for its cytoplasmic retention. May mark specific mRNAs (those transcribed from Y-box promoters) in the nucleus for cytoplasmic storage, thereby linking transcription and mRNA storage/translational delay By similarity.By similarity

    GO - Molecular functioni

    1. chromatin binding Source: Ensembl
    2. DNA binding Source: UniProtKB-KW
    3. lipid binding Source: Ensembl
    4. mRNA 3'-UTR binding Source: Ensembl
    5. ribonucleoprotein complex binding Source: Ensembl
    6. translation regulator activity Source: Ensembl

    GO - Biological processi

    1. mRNA stabilization Source: Ensembl
    2. negative regulation of binding Source: Ensembl
    3. negative regulation of translation Source: Ensembl
    4. oocyte development Source: Ensembl
    5. regulation of transcription, DNA-templated Source: InterPro
    6. spermatid development Source: Ensembl
    7. spermatogenesis Source: ProtInc
    8. transcription from RNA polymerase II promoter Source: ProtInc
    9. translational attenuation Source: ProtInc

    Keywords - Ligandi

    DNA-binding, RNA-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Y-box-binding protein 2
    Alternative name(s):
    Contrin
    DNA-binding protein C
    Short name:
    Dbpc
    Germ cell-specific Y-box-binding protein
    MSY2 homolog
    Gene namesi
    Name:YBX2
    Synonyms:CSDA3, MSY2
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 17

    Organism-specific databases

    HGNCiHGNC:17948. YBX2.

    Subcellular locationi

    Cytoplasm 1 Publication. Nucleus 1 Publication

    GO - Cellular componenti

    1. cytoplasm Source: ProtInc
    2. nucleus Source: ProtInc
    3. polysome Source: Ensembl

    Keywords - Cellular componenti

    Cytoplasm, Nucleus

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA142670560.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 364364Y-box-binding protein 2PRO_0000100225Add
    BLAST

    Post-translational modificationi

    Phosphorylated during oocyte maturation and dephosphorylated following egg activation. Phosphorylated in vitro by a kinase activity associated with testicular mRNPs. Dephosphorylation leads to a decrease in its affinity to bind RNA in vitro By similarity.By similarity

    Keywords - PTMi

    Phosphoprotein

    Proteomic databases

    MaxQBiQ9Y2T7.
    PaxDbiQ9Y2T7.
    PRIDEiQ9Y2T7.

    PTM databases

    PhosphoSiteiQ9Y2T7.

    Expressioni

    Tissue specificityi

    Expressed in oocytes and testicular germ cells in the stage of spermatogonia to spermatocyte. Also observed placental trophoblasts, as well as in vascular smooth muscle cells in the pulmonary artery, myocardium, and skeletal muscle. Undetectable in epithelial cells in respiratory, gastrointestinal, and urogenital tracts. Up-regulated in various carcinomas and germ cell tumors (at protein level).2 Publications

    Gene expression databases

    BgeeiQ9Y2T7.
    CleanExiHS_YBX2.
    GenevestigatoriQ9Y2T7.

    Organism-specific databases

    HPAiCAB012332.
    HPA053904.
    HPA056744.

    Interactioni

    Subunit structurei

    Found in a mRNP complex with PABPC1 and YBX3.By similarity

    Protein-protein interaction databases

    BioGridi119277. 4 interactions.
    IntActiQ9Y2T7. 2 interactions.
    STRINGi9606.ENSP00000007699.

    Structurei

    3D structure databases

    ProteinModelPortaliQ9Y2T7.
    SMRiQ9Y2T7. Positions 87-164.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini93 – 16371CSDAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni87 – 16983Required for cytoplasmic retentionBy similarityAdd
    BLAST
    Regioni217 – 364148Required for mRNA-bindingAdd
    BLAST

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi35 – 6733Gly-richAdd
    BLAST
    Compositional biasi185 – 352168Pro-richAdd
    BLAST

    Sequence similaritiesi

    Contains 1 CSD (cold-shock) domain.Curated

    Phylogenomic databases

    eggNOGiCOG1278.
    HOGENOMiHOG000116439.
    HOVERGENiHBG079361.
    InParanoidiQ9Y2T7.
    KOiK09277.
    OMAiGPRPSNQ.
    OrthoDBiEOG7TBC44.
    PhylomeDBiQ9Y2T7.
    TreeFamiTF317306.

    Family and domain databases

    Gene3Di2.40.50.140. 1 hit.
    InterProiIPR019844. Cold-shock_CS.
    IPR011129. Cold_shock_prot.
    IPR002059. CSP_DNA-bd.
    IPR012340. NA-bd_OB-fold.
    [Graphical view]
    PfamiPF00313. CSD. 1 hit.
    [Graphical view]
    PRINTSiPR00050. COLDSHOCK.
    SMARTiSM00357. CSP. 1 hit.
    [Graphical view]
    SUPFAMiSSF50249. SSF50249. 1 hit.
    PROSITEiPS00352. COLD_SHOCK. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q9Y2T7-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSEVEAAAGA TAVPAATVPA TAAGVVAVVV PVPAGEPQKG GGAGGGGGAA    50
    SGPAAGTPSA PGSRTPGNPA TAVSGTPAPP ARSQADKPVL AIQVLGTVKW 100
    FNVRNGYGFI NRNDTKEDVF VHQTAIKRNN PRKFLRSVGD GETVEFDVVE 150
    GEKGAEATNV TGPGGVPVKG SRYAPNRRKS RRFIPRPPSV APPPMVAEIP 200
    SAGTGPGSKG ERAEDSGQRP RRWCPPPFFY RRRFVRGPRP PNQQQPIEGT 250
    DRVEPKETAP LEGHQQQGDE RVPPPRFRPR YRRPFRPRPR QQPTTEGGDG 300
    ETKPSQGPAD GSRPEPQRPR NRPYFQRRRQ QAPGPQQAPG PRQPAAPETS 350
    APVNSGDPTT TILE 364
    Length:364
    Mass (Da):38,518
    Last modified:October 17, 2006 - v2
    Checksum:i0B16DEF46F4634FA
    GO

    Natural variant

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti9 – 91G → V.3 Publications
    Corresponds to variant rs222859 [ dbSNP | Ensembl ].
    VAR_027916
    Natural varianti63 – 631S → P.
    Corresponds to variant rs8069533 [ dbSNP | Ensembl ].
    VAR_027917

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF096834 mRNA. Translation: AAD30662.1.
    CH471108 Genomic DNA. Translation: EAW90223.1.
    CH471108 Genomic DNA. Translation: EAW90224.1.
    BC033800 mRNA. Translation: AAH33800.1.
    BC047760 mRNA. Translation: AAH47760.1.
    CCDSiCCDS11098.1.
    RefSeqiNP_057066.2. NM_015982.3.
    UniGeneiHs.567494.

    Genome annotation databases

    EnsembliENST00000007699; ENSP00000007699; ENSG00000006047.
    GeneIDi51087.
    KEGGihsa:51087.
    UCSCiuc002gfq.2. human.

    Polymorphism databases

    DMDMi116242847.

    Keywords - Coding sequence diversityi

    Polymorphism

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF096834 mRNA. Translation: AAD30662.1 .
    CH471108 Genomic DNA. Translation: EAW90223.1 .
    CH471108 Genomic DNA. Translation: EAW90224.1 .
    BC033800 mRNA. Translation: AAH33800.1 .
    BC047760 mRNA. Translation: AAH47760.1 .
    CCDSi CCDS11098.1.
    RefSeqi NP_057066.2. NM_015982.3.
    UniGenei Hs.567494.

    3D structure databases

    ProteinModelPortali Q9Y2T7.
    SMRi Q9Y2T7. Positions 87-164.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 119277. 4 interactions.
    IntActi Q9Y2T7. 2 interactions.
    STRINGi 9606.ENSP00000007699.

    PTM databases

    PhosphoSitei Q9Y2T7.

    Polymorphism databases

    DMDMi 116242847.

    Proteomic databases

    MaxQBi Q9Y2T7.
    PaxDbi Q9Y2T7.
    PRIDEi Q9Y2T7.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000007699 ; ENSP00000007699 ; ENSG00000006047 .
    GeneIDi 51087.
    KEGGi hsa:51087.
    UCSCi uc002gfq.2. human.

    Organism-specific databases

    CTDi 51087.
    GeneCardsi GC17M007191.
    HGNCi HGNC:17948. YBX2.
    HPAi CAB012332.
    HPA053904.
    HPA056744.
    MIMi 611447. gene.
    neXtProti NX_Q9Y2T7.
    PharmGKBi PA142670560.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi COG1278.
    HOGENOMi HOG000116439.
    HOVERGENi HBG079361.
    InParanoidi Q9Y2T7.
    KOi K09277.
    OMAi GPRPSNQ.
    OrthoDBi EOG7TBC44.
    PhylomeDBi Q9Y2T7.
    TreeFami TF317306.

    Miscellaneous databases

    ChiTaRSi YBX2. human.
    GeneWikii YBX2.
    GenomeRNAii 51087.
    NextBioi 53755.
    PROi Q9Y2T7.
    SOURCEi Search...

    Gene expression databases

    Bgeei Q9Y2T7.
    CleanExi HS_YBX2.
    Genevestigatori Q9Y2T7.

    Family and domain databases

    Gene3Di 2.40.50.140. 1 hit.
    InterProi IPR019844. Cold-shock_CS.
    IPR011129. Cold_shock_prot.
    IPR002059. CSP_DNA-bd.
    IPR012340. NA-bd_OB-fold.
    [Graphical view ]
    Pfami PF00313. CSD. 1 hit.
    [Graphical view ]
    PRINTSi PR00050. COLDSHOCK.
    SMARTi SM00357. CSP. 1 hit.
    [Graphical view ]
    SUPFAMi SSF50249. SSF50249. 1 hit.
    PROSITEi PS00352. COLD_SHOCK. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Contrin, the human homologue of a germ-cell Y-box-binding protein: cloning, expression, and chromosomal localization."
      Tekur S., Pawlak A., Guellaen G., Hecht N.B.
      J. Androl. 20:135-144(1999) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA], TISSUE SPECIFICITY, VARIANT VAL-9.
    2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA], VARIANT VAL-9.
    3. "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], VARIANT VAL-9.
      Tissue: Brain.
    4. "Expression of Y-box-binding protein dbpC/contrin, a potentially new cancer/testis antigen."
      Kohno Y., Matsuki Y., Tanimoto A., Izumi H., Uchiumi T., Kohno K., Shimajiri S., Sasaguri Y.
      Br. J. Cancer 94:710-716(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: TISSUE SPECIFICITY, SUBCELLULAR LOCATION.

    Entry informationi

    Entry nameiYBOX2_HUMAN
    AccessioniPrimary (citable) accession number: Q9Y2T7
    Secondary accession number(s): D3DTP1, Q8N4P0
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 15, 2005
    Last sequence update: October 17, 2006
    Last modified: October 1, 2014
    This is version 107 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 17
      Human chromosome 17: 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