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Q8WU68

- U2AF4_HUMAN

UniProt

Q8WU68 - U2AF4_HUMAN

Protein

Splicing factor U2AF 26 kDa subunit

Gene

U2AF1L4

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 119 (01 Oct 2014)
      Sequence version 2 (13 Nov 2007)
      Previous versions | rss
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    Functioni

    RNA-binding protein that function as a pre-mRNA splicing factor. Plays a critical role in both constitutive and enhancer-dependent splicing by mediating protein-protein interactions and protein-RNA interactions required for accurate 3'-splice site selection. Acts by enhancing the binding of U2AF2 to weak pyrimidine tracts. Also participates in the regulation of alternative pre-mRNA splicing. Activates exon 5 skipping of PTPRC during T-cell activation; an event reversed by GFI1. Binds to RNA at the AG dinucleotide at the 3'-splice site By similarity.By similarity

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri12 – 4029C3H1-type 1PROSITE-ProRule annotationAdd
    BLAST
    Zinc fingeri149 – 17628C3H1-type 2PROSITE-ProRule annotationAdd
    BLAST

    GO - Molecular functioni

    1. metal ion binding Source: UniProtKB-KW
    2. nucleotide binding Source: InterPro
    3. RNA binding Source: UniProtKB-KW

    GO - Biological processi

    1. mRNA processing Source: UniProtKB-KW
    2. RNA splicing Source: UniProtKB-KW

    Keywords - Biological processi

    mRNA processing, mRNA splicing

    Keywords - Ligandi

    Metal-binding, RNA-binding, Zinc

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Splicing factor U2AF 26 kDa subunit
    Alternative name(s):
    U2 auxiliary factor 26
    U2 small nuclear RNA auxiliary factor 1-like protein 4
    U2(RNU2) small nuclear RNA auxiliary factor 1-like protein 3
    Short name:
    U2 small nuclear RNA auxiliary factor 1-like protein 3
    Short name:
    U2AF1-like protein 3
    Gene namesi
    Name:U2AF1L4
    Synonyms:U2AF1-RS3, U2AF1L3
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 19

    Organism-specific databases

    HGNCiHGNC:23020. U2AF1L4.

    Subcellular locationi

    Nucleus By similarity. Nucleus speckle By similarity

    GO - Cellular componenti

    1. nuclear speck Source: UniProtKB-SubCell
    2. spliceosomal complex Source: UniProtKB-KW

    Keywords - Cellular componenti

    Nucleus, Spliceosome

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA164742763.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Initiator methioninei1 – 11Removed1 Publication
    Chaini2 – 220219Splicing factor U2AF 26 kDa subunitPRO_0000309740Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei2 – 21N-acetylalanine1 Publication

    Keywords - PTMi

    Acetylation

    Proteomic databases

    MaxQBiQ8WU68.
    PaxDbiQ8WU68.
    PRIDEiQ8WU68.

    PTM databases

    PhosphoSiteiQ8WU68.

    Expressioni

    Tissue specificityi

    Isoform 2 is widely expressed. Isoform 3 is highly expressed in heart, brain and lung, lower expressed in thymus and much lower expressed in peripheral blood leukocytes.1 Publication

    Gene expression databases

    BgeeiQ8WU68.
    CleanExiHS_U2AF1L4.
    GenevestigatoriQ8WU68.

    Organism-specific databases

    HPAiHPA046378.

    Interactioni

    Subunit structurei

    Interacts with GFI1 and U2AF2.By similarity

    Protein-protein interaction databases

    BioGridi128270. 6 interactions.
    IntActiQ8WU68. 2 interactions.
    STRINGi9606.ENSP00000292879.

    Structurei

    3D structure databases

    ProteinModelPortaliQ8WU68.
    SMRiQ8WU68. Positions 43-146.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini65 – 14783RRMPROSITE-ProRule annotationAdd
    BLAST

    Domaini

    The second zinc finger in necessary for interaction with GFI1 and for alternative pre-mRNA splicing events.By similarity

    Sequence similaritiesi

    Belongs to the splicing factor SR family.Curated
    Contains 2 C3H1-type zinc fingers.PROSITE-ProRule annotation
    Contains 1 RRM (RNA recognition motif) domain.PROSITE-ProRule annotation

    Zinc finger

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri12 – 4029C3H1-type 1PROSITE-ProRule annotationAdd
    BLAST
    Zinc fingeri149 – 17628C3H1-type 2PROSITE-ProRule annotationAdd
    BLAST

    Keywords - Domaini

    Repeat, Zinc-finger

    Phylogenomic databases

    eggNOGiNOG252826.
    HOGENOMiHOG000178619.
    HOVERGENiHBG054605.
    OMAiRPVHCEL.
    PhylomeDBiQ8WU68.
    TreeFamiTF300143.

    Family and domain databases

    Gene3Di3.30.70.330. 1 hit.
    InterProiIPR012677. Nucleotide-bd_a/b_plait.
    IPR000504. RRM_dom.
    IPR003954. RRM_dom_euk.
    IPR009145. U2_small.
    IPR000571. Znf_CCCH.
    [Graphical view]
    PANTHERiPTHR12620. PTHR12620. 1 hit.
    PfamiPF00076. RRM_1. 1 hit.
    PF00642. zf-CCCH. 2 hits.
    [Graphical view]
    PRINTSiPR01848. U2AUXFACTOR.
    SMARTiSM00361. RRM_1. 1 hit.
    SM00356. ZnF_C3H1. 2 hits.
    [Graphical view]
    PROSITEiPS50102. RRM. 1 hit.
    PS50103. ZF_C3H1. 2 hits.
    [Graphical view]

    Sequences (3)i

    Sequence statusi: Complete.

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

    This entry describes 3 isoformsi produced by alternative splicing. Align

    Isoform 1 (identifier: Q8WU68-1) [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

    MAEYLASIFG TEKDKVNCSF YFKIGVCRHG DRCSRLHNKP TFSQTIVLLN    50
    LYRNPQNTAQ TADGSHCHVS DVEVQEHYDS FFEEVFTELQ EKYGEIEEMN 100
    VCDNLGDHLV GNVYVKFRRE EDGERAVAEL SNRWFNGQAV HGELSPVTDF 150
    RESCCRQYEM GECTRGGFCN FMHLRPISQN LQRQLYGRGP RRRSPPRFHT 200
    GHHPRERNHR CSPDHWHGRF 220

    Note: No experimental confirmation available.

    Length:220
    Mass (Da):25,744
    Last modified:November 13, 2007 - v2
    Checksum:i64BA09EEDE3FB093
    GO
    Isoform 2 (identifier: Q8WU68-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         45-83: Missing.
         143-220: ELSPVTDFRE...CSPDHWHGRF → NVPEVASATS...ILPRLPGSIM

    Show »
    Length:202
    Mass (Da):22,017
    Checksum:iE7001729AA18DD96
    GO
    Isoform 3 (identifier: Q8WU68-3) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         45-83: Missing.

    Show »
    Length:181
    Mass (Da):21,283
    Checksum:iEE3B93447ABA55AF
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti109 – 1091L → V in AAH21186. (PubMed:15489334)Curated

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei45 – 8339Missing in isoform 2 and isoform 3. 2 PublicationsVSP_029264Add
    BLAST
    Alternative sequencei143 – 22078ELSPV…WHGRF → NVPEVASATSCICGPFPRTS RGSSMGGDPGAGHPRGSILA TIPERGTIGVPLITGMAASE ALAPLPFTPNRDRCSWQDLS SKPPSLSCPILPRLPGSIM in isoform 2. 1 PublicationVSP_029265Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AY569437 mRNA. Translation: AAT72770.3.
    AD000671 Genomic DNA. No translation available.
    BC021186 mRNA. Translation: AAH21186.1.
    CCDSiCCDS12473.1. [Q8WU68-2]
    CCDS42551.1. [Q8WU68-3]
    RefSeqiNP_001035515.1. NM_001040425.2. [Q8WU68-3]
    NP_659424.2. NM_144987.3. [Q8WU68-2]
    UniGeneiHs.351558.

    Genome annotation databases

    EnsembliENST00000292879; ENSP00000292879; ENSG00000161265. [Q8WU68-2]
    ENST00000378975; ENSP00000368258; ENSG00000161265. [Q8WU68-3]
    ENST00000412391; ENSP00000397645; ENSG00000161265. [Q8WU68-1]
    GeneIDi199746.
    KEGGihsa:199746.
    UCSCiuc002obe.3. human. [Q8WU68-3]
    uc002obf.3. human. [Q8WU68-2]

    Polymorphism databases

    DMDMi160358766.

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AY569437 mRNA. Translation: AAT72770.3 .
    AD000671 Genomic DNA. No translation available.
    BC021186 mRNA. Translation: AAH21186.1 .
    CCDSi CCDS12473.1. [Q8WU68-2 ]
    CCDS42551.1. [Q8WU68-3 ]
    RefSeqi NP_001035515.1. NM_001040425.2. [Q8WU68-3 ]
    NP_659424.2. NM_144987.3. [Q8WU68-2 ]
    UniGenei Hs.351558.

    3D structure databases

    ProteinModelPortali Q8WU68.
    SMRi Q8WU68. Positions 43-146.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 128270. 6 interactions.
    IntActi Q8WU68. 2 interactions.
    STRINGi 9606.ENSP00000292879.

    PTM databases

    PhosphoSitei Q8WU68.

    Polymorphism databases

    DMDMi 160358766.

    Proteomic databases

    MaxQBi Q8WU68.
    PaxDbi Q8WU68.
    PRIDEi Q8WU68.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000292879 ; ENSP00000292879 ; ENSG00000161265 . [Q8WU68-2 ]
    ENST00000378975 ; ENSP00000368258 ; ENSG00000161265 . [Q8WU68-3 ]
    ENST00000412391 ; ENSP00000397645 ; ENSG00000161265 . [Q8WU68-1 ]
    GeneIDi 199746.
    KEGGi hsa:199746.
    UCSCi uc002obe.3. human. [Q8WU68-3 ]
    uc002obf.3. human. [Q8WU68-2 ]

    Organism-specific databases

    CTDi 199746.
    GeneCardsi GC19M036233.
    HGNCi HGNC:23020. U2AF1L4.
    HPAi HPA046378.
    MIMi 601080. gene.
    neXtProti NX_Q8WU68.
    PharmGKBi PA164742763.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi NOG252826.
    HOGENOMi HOG000178619.
    HOVERGENi HBG054605.
    OMAi RPVHCEL.
    PhylomeDBi Q8WU68.
    TreeFami TF300143.

    Miscellaneous databases

    GenomeRNAii 199746.
    NextBioi 89722.
    PROi Q8WU68.
    SOURCEi Search...

    Gene expression databases

    Bgeei Q8WU68.
    CleanExi HS_U2AF1L4.
    Genevestigatori Q8WU68.

    Family and domain databases

    Gene3Di 3.30.70.330. 1 hit.
    InterProi IPR012677. Nucleotide-bd_a/b_plait.
    IPR000504. RRM_dom.
    IPR003954. RRM_dom_euk.
    IPR009145. U2_small.
    IPR000571. Znf_CCCH.
    [Graphical view ]
    PANTHERi PTHR12620. PTHR12620. 1 hit.
    Pfami PF00076. RRM_1. 1 hit.
    PF00642. zf-CCCH. 2 hits.
    [Graphical view ]
    PRINTSi PR01848. U2AUXFACTOR.
    SMARTi SM00361. RRM_1. 1 hit.
    SM00356. ZnF_C3H1. 2 hits.
    [Graphical view ]
    PROSITEi PS50102. RRM. 1 hit.
    PS50103. ZF_C3H1. 2 hits.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Cloning and characterization of a novel splice variant of human U2AF1L3 gene."
      Chen F., Ji C., Dou T., Zheng N., Qiu R., Peng J., Fang W., Feng C., Xie Y., Mao Y.
      DNA Seq. 17:282-286(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2), TISSUE SPECIFICITY.
    2. "The DNA sequence and biology of human chromosome 19."
      Grimwood J., Gordon L.A., Olsen A.S., Terry A., Schmutz J., Lamerdin J.E., Hellsten U., Goodstein D., Couronne O., Tran-Gyamfi M., Aerts A., Altherr M., Ashworth L., Bajorek E., Black S., Branscomb E., Caenepeel S., Carrano A.V.
      , Caoile C., Chan Y.M., Christensen M., Cleland C.A., Copeland A., Dalin E., Dehal P., Denys M., Detter J.C., Escobar J., Flowers D., Fotopulos D., Garcia C., Georgescu A.M., Glavina T., Gomez M., Gonzales E., Groza M., Hammon N., Hawkins T., Haydu L., Ho I., Huang W., Israni S., Jett J., Kadner K., Kimball H., Kobayashi A., Larionov V., Leem S.-H., Lopez F., Lou Y., Lowry S., Malfatti S., Martinez D., McCready P.M., Medina C., Morgan J., Nelson K., Nolan M., Ovcharenko I., Pitluck S., Pollard M., Popkie A.P., Predki P., Quan G., Ramirez L., Rash S., Retterer J., Rodriguez A., Rogers S., Salamov A., Salazar A., She X., Smith D., Slezak T., Solovyev V., Thayer N., Tice H., Tsai M., Ustaszewska A., Vo N., Wagner M., Wheeler J., Wu K., Xie G., Yang J., Dubchak I., Furey T.S., DeJong P., Dickson M., Gordon D., Eichler E.E., Pennacchio L.A., Richardson P., Stubbs L., Rokhsar D.S., Myers R.M., Rubin E.M., Lucas S.M.
      Nature 428:529-535(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    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] (ISOFORM 3).
      Tissue: Brain.
    4. Bienvenut W.V., Zebisch A., Kolch W.
      Submitted (OCT-2008) to UniProtKB
      Cited for: PROTEIN SEQUENCE OF 2-13, CLEAVAGE OF INITIATOR METHIONINE, ACETYLATION AT ALA-2, IDENTIFICATION BY MASS SPECTROMETRY.
      Tissue: Colon carcinoma.

    Entry informationi

    Entry nameiU2AF4_HUMAN
    AccessioniPrimary (citable) accession number: Q8WU68
    Secondary accession number(s): A6NKI8, Q56UU3
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: November 13, 2007
    Last sequence update: November 13, 2007
    Last modified: October 1, 2014
    This is version 119 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, Direct protein sequencing, Reference proteome

    Documents

    1. Human chromosome 19
      Human chromosome 19: entries, gene names and cross-references to MIM
    2. MIM cross-references
      Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3