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Q6PE01

- SNR40_MOUSE

UniProt

Q6PE01 - SNR40_MOUSE

Protein

U5 small nuclear ribonucleoprotein 40 kDa protein

Gene

Snrnp40

Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 2 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 99 (01 Oct 2014)
      Sequence version 1 (05 Jul 2004)
      Previous versions | rss
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    Functioni

    Component of the U5 small nuclear ribonucleoprotein (snRNP) complex. The U5 snRNP is part of the spliceosome, a multiprotein complex that catalyzes the removal of introns from pre-messenger RNAs By similarity.By similarity

    GO - Biological processi

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

    Keywords - Biological processi

    mRNA processing, mRNA splicing

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    U5 small nuclear ribonucleoprotein 40 kDa protein
    Short name:
    U5 snRNP 40 kDa protein
    Alternative name(s):
    WD repeat-containing protein 57
    Gene namesi
    Name:Snrnp40
    Synonyms:Wdr57
    OrganismiMus musculus (Mouse)
    Taxonomic identifieri10090 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
    ProteomesiUP000000589: Chromosome 4

    Organism-specific databases

    MGIiMGI:1913835. Snrnp40.

    Subcellular locationi

    Nucleus By similarity

    GO - Cellular componenti

    1. catalytic step 2 spliceosome Source: Ensembl
    2. cytoplasm Source: Ensembl

    Keywords - Cellular componenti

    Nucleus, Spliceosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 358358U5 small nuclear ribonucleoprotein 40 kDa proteinPRO_0000051418Add
    BLAST

    Proteomic databases

    MaxQBiQ6PE01.
    PaxDbiQ6PE01.
    PRIDEiQ6PE01.

    PTM databases

    PhosphoSiteiQ6PE01.

    Expressioni

    Gene expression databases

    BgeeiQ6PE01.
    GenevestigatoriQ6PE01.

    Interactioni

    Subunit structurei

    Identified in the spliceosome C complex. Associated with the spliceosome complex. Part of the U5 snRNP complex. Interacts with PRPF8. Component of the U4/U6-U5 tri-snRNP complex composed of the U4, U6 and U5 snRNAs and at least PRPF3, PRPF4, PRPF6, PRPF8, PRPF31, SNRNP200, TXNL4A, WDR57, SNRNP40, DDX23, CD2BP2, PPIH, NHP2L1, EFTUD2, SART1 and USP39 By similarity.By similarity

    Protein-protein interaction databases

    IntActiQ6PE01. 2 interactions.
    MINTiMINT-4128759.

    Structurei

    3D structure databases

    ProteinModelPortaliQ6PE01.
    SMRiQ6PE01. Positions 63-350.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Repeati65 – 10440WD 1Add
    BLAST
    Repeati108 – 14740WD 2Add
    BLAST
    Repeati150 – 19041WD 3Add
    BLAST
    Repeati192 – 23140WD 4Add
    BLAST
    Repeati234 – 27340WD 5Add
    BLAST
    Repeati284 – 32340WD 6Add
    BLAST
    Repeati326 – 35833WD 7Add
    BLAST

    Sequence similaritiesi

    Contains 7 WD repeats.PROSITE-ProRule annotation

    Keywords - Domaini

    Repeat, WD repeat

    Phylogenomic databases

    eggNOGiCOG2319.
    GeneTreeiENSGT00740000115355.
    HOGENOMiHOG000091644.
    HOVERGENiHBG105197.
    InParanoidiQ6PE01.
    KOiK12857.
    OMAiTAVDFHP.
    OrthoDBiEOG7992QT.
    PhylomeDBiQ6PE01.
    TreeFamiTF300039.

    Family and domain databases

    Gene3Di2.130.10.10. 1 hit.
    InterProiIPR020472. G-protein_beta_WD-40_rep.
    IPR015943. WD40/YVTN_repeat-like_dom.
    IPR001680. WD40_repeat.
    IPR019775. WD40_repeat_CS.
    IPR017986. WD40_repeat_dom.
    [Graphical view]
    PfamiPF00400. WD40. 7 hits.
    [Graphical view]
    PRINTSiPR00320. GPROTEINBRPT.
    SMARTiSM00320. WD40. 7 hits.
    [Graphical view]
    SUPFAMiSSF50978. SSF50978. 1 hit.
    PROSITEiPS00678. WD_REPEATS_1. 5 hits.
    PS50082. WD_REPEATS_2. 7 hits.
    PS50294. WD_REPEATS_REGION. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q6PE01-1 [UniParc]FASTAAdd to Basket

    « Hide

    MIEQQKRKGP ELPLVPVKRP RHELLLGAAG AGPGAGPQQA TPGALLQAGP    50
    PRCSSLQAPI MLLSGHEGEV YCCKFHPNGS TLASAGFDRL ILLWNVYGDC 100
    DNYATLKGHS GAVMELHYNT DGSMLFSAST DKTVAVWDSE TGERVKRLKG 150
    HTSFVNSCYP ARRGPQLVCT GSDDGTVKLW DIRKKAAVQT FQNTYQVLAV 200
    TFNDTSDQII SGGIDNDIKV WDLRQNKLTY TMRGHADSVT GLSLSSEGSY 250
    LLSNAMDNTV RVWDVRPFAP KERCVKIFQG NVHNFEKNLL RCSWSPDGSK 300
    IAAGSADRFV YVWDTTSRRV LYKLPGHAGS INEVAFHPDE PIILSASSDK 350
    RLYMGEIQ 358
    Length:358
    Mass (Da):39,276
    Last modified:July 5, 2004 - v1
    Checksum:i3B3EEA458D8228CA
    GO

    Sequence cautioni

    The sequence BAB22049.1 differs from that shown. Reason: Frameshift at position 314.

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti185 – 1851K → R in BAB22049. (PubMed:16141072)Curated
    Sequence conflicti241 – 2411G → D in BAB22049. (PubMed:16141072)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AK002371 mRNA. Translation: BAB22049.1. Frameshift.
    AK169605 mRNA. Translation: BAE41255.1.
    BC058365 mRNA. Translation: AAH58365.1.
    CCDSiCCDS38892.1.
    RefSeqiNP_079921.2. NM_025645.2.
    UniGeneiMm.423019.

    Genome annotation databases

    EnsembliENSMUST00000105994; ENSMUSP00000101616; ENSMUSG00000074088.
    GeneIDi66585.
    KEGGimmu:66585.
    UCSCiuc008uzf.1. mouse.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AK002371 mRNA. Translation: BAB22049.1 . Frameshift.
    AK169605 mRNA. Translation: BAE41255.1 .
    BC058365 mRNA. Translation: AAH58365.1 .
    CCDSi CCDS38892.1.
    RefSeqi NP_079921.2. NM_025645.2.
    UniGenei Mm.423019.

    3D structure databases

    ProteinModelPortali Q6PE01.
    SMRi Q6PE01. Positions 63-350.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    IntActi Q6PE01. 2 interactions.
    MINTi MINT-4128759.

    PTM databases

    PhosphoSitei Q6PE01.

    Proteomic databases

    MaxQBi Q6PE01.
    PaxDbi Q6PE01.
    PRIDEi Q6PE01.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSMUST00000105994 ; ENSMUSP00000101616 ; ENSMUSG00000074088 .
    GeneIDi 66585.
    KEGGi mmu:66585.
    UCSCi uc008uzf.1. mouse.

    Organism-specific databases

    CTDi 9410.
    MGIi MGI:1913835. Snrnp40.

    Phylogenomic databases

    eggNOGi COG2319.
    GeneTreei ENSGT00740000115355.
    HOGENOMi HOG000091644.
    HOVERGENi HBG105197.
    InParanoidi Q6PE01.
    KOi K12857.
    OMAi TAVDFHP.
    OrthoDBi EOG7992QT.
    PhylomeDBi Q6PE01.
    TreeFami TF300039.

    Miscellaneous databases

    NextBioi 322070.
    PROi Q6PE01.
    SOURCEi Search...

    Gene expression databases

    Bgeei Q6PE01.
    Genevestigatori Q6PE01.

    Family and domain databases

    Gene3Di 2.130.10.10. 1 hit.
    InterProi IPR020472. G-protein_beta_WD-40_rep.
    IPR015943. WD40/YVTN_repeat-like_dom.
    IPR001680. WD40_repeat.
    IPR019775. WD40_repeat_CS.
    IPR017986. WD40_repeat_dom.
    [Graphical view ]
    Pfami PF00400. WD40. 7 hits.
    [Graphical view ]
    PRINTSi PR00320. GPROTEINBRPT.
    SMARTi SM00320. WD40. 7 hits.
    [Graphical view ]
    SUPFAMi SSF50978. SSF50978. 1 hit.
    PROSITEi PS00678. WD_REPEATS_1. 5 hits.
    PS50082. WD_REPEATS_2. 7 hits.
    PS50294. WD_REPEATS_REGION. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "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 and NOD.
      Tissue: Kidney and Thymus.
    2. "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].
      Strain: C57BL/6.

    Entry informationi

    Entry nameiSNR40_MOUSE
    AccessioniPrimary (citable) accession number: Q6PE01
    Secondary accession number(s): Q3TEJ3, Q9DCX3
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: June 7, 2005
    Last sequence update: July 5, 2004
    Last modified: October 1, 2014
    This is version 99 of the entry and version 1 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. MGD cross-references
      Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3