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P39990

- SNU13_YEAST

UniProt

P39990 - SNU13_YEAST

Protein

13 kDa ribonucleoprotein-associated protein

Gene

SNU13

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 126 (01 Oct 2014)
      Sequence version 1 (01 Feb 1995)
      Previous versions | rss
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    Functioni

    Common component of the spliceosome and rRNA processing machinery. In association with the spliceosomal U4/U6.U5 tri-snRNP particle, required for splicing of pre-mRNA. In association with box C/D snoRNPs, required for processing of pre-ribosomal RNA (rRNA) and site-specific 2'-O-methylation of substrate RNAs. Essential for the accumulation and stability of U4 snRNA, U6 snRNA, and box C/D snoRNAs.3 Publications

    GO - Molecular functioni

    1. RNA binding Source: SGD

    GO - Biological processi

    1. maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Source: SGD
    2. mRNA splicing, via spliceosome Source: SGD

    Keywords - Molecular functioni

    Ribonucleoprotein

    Keywords - Biological processi

    mRNA processing, mRNA splicing, Ribosome biogenesis, rRNA processing

    Keywords - Ligandi

    RNA-binding

    Enzyme and pathway databases

    BioCyciYEAST:G3O-30149-MONOMER.
    ReactomeiREACT_191540. mRNA Splicing - Minor Pathway.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    13 kDa ribonucleoprotein-associated protein
    Alternative name(s):
    Small nuclear ribonucleoprotein-associated protein 1
    Gene namesi
    Name:SNU13
    Ordered Locus Names:YEL026W
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    ProteomesiUP000002311: Chromosome V

    Organism-specific databases

    CYGDiYEL026w.
    SGDiS000000752. SNU13.

    Subcellular locationi

    GO - Cellular componenti

    1. box C/D snoRNP complex Source: SGD
    2. nucleolus Source: SGD
    3. small-subunit processome Source: SGD
    4. spliceosomal complex Source: UniProtKB-KW
    5. U4/U6 x U5 tri-snRNP complex Source: SGD

    Keywords - Cellular componenti

    Nucleus, Spliceosome

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi59 – 591E → A: Impairs binding to U4 snRNA, but not U3 snoRNA. Causes pre-mRNA splicing and pre-rRNA processing defects. 1 Publication
    Mutagenesisi81 – 811V → L: Impairs binding to U4 snRNA, but not U3 snoRNA, and causes pre rRNA processing defects and an accumulation of unspliced U3 snoRNA; when associated with A-84. 1 Publication
    Mutagenesisi84 – 841R → A: Impairs binding to U4 snRNA, but not U3 snoRNA, and causes pre rRNA processing defects and an accumulation of unspliced U3 snoRNA; when associated with L-81. 1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 12612613 kDa ribonucleoprotein-associated proteinPRO_0000136777Add
    BLAST

    Proteomic databases

    MaxQBiP39990.
    PaxDbiP39990.
    PeptideAtlasiP39990.

    Expressioni

    Gene expression databases

    GenevestigatoriP39990.

    Interactioni

    Subunit structurei

    Binds to the C'/D and B/C motifs in U3 snoRNA. Component of the U4/U6-U5 tri-snRNP complex composed of the U4, U6 and U5 snRNAs and at least PRP3, PRP4, PRP6, PRP8, PRP18, PRP31, PRP38, SNU13, SNU23, SNU66, SNU114, SPP381, SMB1, SMD1, SMD2, SMD3, SMX2, SMX3, LSM2, LSM3, LSM4, LSM5, LSM6, LSM7, LSM8, BRR2 and DIB1. Binds to the 5'-stem-loop of U4 snRNA. Component of the ribosomal small subunit (SSU) processome composed of at least 40 protein subunits and snoRNA U3.6 Publications

    Protein-protein interaction databases

    BioGridi36703. 56 interactions.
    DIPiDIP-2870N.
    IntActiP39990. 18 interactions.
    MINTiMINT-627070.
    STRINGi4932.YEL026W.

    Structurei

    Secondary structure

    1
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi14 – 2916
    Beta strandi33 – 364
    Helixi37 – 4610
    Beta strandi49 – 557
    Helixi61 – 644
    Helixi66 – 749
    Beta strandi78 – 825
    Helixi84 – 907
    Beta strandi98 – 1036
    Helixi111 – 12616

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1ZWZX-ray1.90A/B1-126[»]
    2ALEX-ray1.80A1-126[»]
    ProteinModelPortaliP39990.
    SMRiP39990. Positions 1-126.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP39990.

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the ribosomal protein L7Ae family.Curated

    Phylogenomic databases

    eggNOGiCOG1358.
    GeneTreeiENSGT00550000074840.
    HOGENOMiHOG000055226.
    KOiK12845.
    OMAiQWIPLEN.
    OrthoDBiEOG790GCX.

    Family and domain databases

    Gene3Di3.30.1330.30. 1 hit.
    InterProiIPR002415. H/ACA_rnp_Nhp2_euk.
    IPR029064. L30e-like.
    IPR004038. Ribosomal_L7Ae/L30e/S12e/Gad45.
    IPR018492. Ribosomal_L7Ae/L8/Nhp2.
    IPR004037. Ribosomal_L7Ae_CS.
    [Graphical view]
    PfamiPF01248. Ribosomal_L7Ae. 1 hit.
    [Graphical view]
    PRINTSiPR00881. L7ARS6FAMILY.
    PR00883. NUCLEARHMG.
    SUPFAMiSSF55315. SSF55315. 1 hit.
    PROSITEiPS01082. RIBOSOMAL_L7AE. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    P39990-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSAPNPKAFP LADAALTQQI LDVVQQAANL RQLKKGANEA TKTLNRGISE    50
    FIIMAADCEP IEILLHLPLL CEDKNVPYVF VPSRVALGRA CGVSRPVIAA 100
    SITTNDASAI KTQIYAVKDK IETLLI 126
    Length:126
    Mass (Da):13,569
    Last modified:February 1, 1995 - v1
    Checksum:i4489780153E8F182
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U18530 Genomic DNA. Translation: AAB64503.1.
    AY558377 Genomic DNA. Translation: AAS56703.1.
    BK006939 Genomic DNA. Translation: DAA07626.1.
    PIRiS50433.
    RefSeqiNP_010888.1. NM_001178841.1.

    Genome annotation databases

    EnsemblFungiiYEL026W; YEL026W; YEL026W.
    GeneIDi856687.
    KEGGisce:YEL026W.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U18530 Genomic DNA. Translation: AAB64503.1 .
    AY558377 Genomic DNA. Translation: AAS56703.1 .
    BK006939 Genomic DNA. Translation: DAA07626.1 .
    PIRi S50433.
    RefSeqi NP_010888.1. NM_001178841.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1ZWZ X-ray 1.90 A/B 1-126 [» ]
    2ALE X-ray 1.80 A 1-126 [» ]
    ProteinModelPortali P39990.
    SMRi P39990. Positions 1-126.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 36703. 56 interactions.
    DIPi DIP-2870N.
    IntActi P39990. 18 interactions.
    MINTi MINT-627070.
    STRINGi 4932.YEL026W.

    Proteomic databases

    MaxQBi P39990.
    PaxDbi P39990.
    PeptideAtlasi P39990.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii YEL026W ; YEL026W ; YEL026W .
    GeneIDi 856687.
    KEGGi sce:YEL026W.

    Organism-specific databases

    CYGDi YEL026w.
    SGDi S000000752. SNU13.

    Phylogenomic databases

    eggNOGi COG1358.
    GeneTreei ENSGT00550000074840.
    HOGENOMi HOG000055226.
    KOi K12845.
    OMAi QWIPLEN.
    OrthoDBi EOG790GCX.

    Enzyme and pathway databases

    BioCyci YEAST:G3O-30149-MONOMER.
    Reactomei REACT_191540. mRNA Splicing - Minor Pathway.

    Miscellaneous databases

    EvolutionaryTracei P39990.
    NextBioi 982724.
    PROi P39990.

    Gene expression databases

    Genevestigatori P39990.

    Family and domain databases

    Gene3Di 3.30.1330.30. 1 hit.
    InterProi IPR002415. H/ACA_rnp_Nhp2_euk.
    IPR029064. L30e-like.
    IPR004038. Ribosomal_L7Ae/L30e/S12e/Gad45.
    IPR018492. Ribosomal_L7Ae/L8/Nhp2.
    IPR004037. Ribosomal_L7Ae_CS.
    [Graphical view ]
    Pfami PF01248. Ribosomal_L7Ae. 1 hit.
    [Graphical view ]
    PRINTSi PR00881. L7ARS6FAMILY.
    PR00883. NUCLEARHMG.
    SUPFAMi SSF55315. SSF55315. 1 hit.
    PROSITEi PS01082. RIBOSOMAL_L7AE. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    2. Cited for: GENOME REANNOTATION.
      Strain: ATCC 204508 / S288c.
    3. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    4. "Identification by mass spectrometry and functional analysis of novel proteins of the yeast [U4/U6.U5] tri-snRNP."
      Gottschalk A., Neubauer G., Banroques J., Mann M., Luehrmann R., Fabrizio P.
      EMBO J. 18:4535-4548(1999) [PubMed] [Europe PMC] [Abstract]
      Cited for: SUBUNIT, IDENTIFICATION IN THE U4/U5/U6 TRI-SNRNP COMPLEX, IDENTIFICATION BY MASS SPECTROMETRY.
    5. "Purification of the yeast U4/U6.U5 small nuclear ribonucleoprotein particle and identification of its proteins."
      Stevens S.W., Abelson J.
      Proc. Natl. Acad. Sci. U.S.A. 96:7226-7231(1999) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION IN U4/U6.U5 TRI-SNRNP COMPLEX, IDENTIFICATION BY MASS SPECTROMETRY.
    6. "A common core RNP structure shared between the small nucleoar box C/D RNPs and the spliceosomal U4 snRNP."
      Watkins N.J., Segault V., Charpentier B., Nottrott S., Fabrizio P., Bachi A., Wilm M., Rosbash M., Branlant C., Luehrmann R.
      Cell 103:457-466(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, IDENTIFICATION IN U3 SNORNP, IDENTIFICATION BY MASS SPECTROMETRY, RNA-BINDING.
    7. "Composition and functional characterization of the yeast spliceosomal penta-snRNP."
      Stevens S.W., Ryan D.E., Ge H.Y., Moore R.E., Young M.K., Lee T.D., Abelson J.
      Mol. Cell 9:31-44(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION IN U1.U2.U4/U6.U5 PENTA-SNRNP COMPLEX, IDENTIFICATION BY MASS SPECTROMETRY.
    8. "Purified box C/D snoRNPs are able to reproduce site-specific 2'-O-methylation of target RNA in vitro."
      Galardi S., Fatica A., Bachi A., Scaloni A., Presutti C., Bozzoni I.
      Mol. Cell. Biol. 22:6663-6668(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, IDENTIFICATION IN U3 SNORNP, IDENTIFICATION BY MASS SPECTROMETRY.
    9. Cited for: IDENTIFICATION IN SSU PROCESSOME BY MASS SPECTROMETRY.
    10. "A structural, phylogenetic, and functional study of 15.5-kD/Snu13 protein binding on U3 small nucleolar RNA."
      Marmier-Gourrier N., Clery A., Senty-Segault V., Charpentier B., Schlotter F., Leclerc F., Fournier R., Branlant C.
      RNA 9:821-838(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: RNA-BINDING.
    11. "Analysis of Snu13p mutations reveals differential interactions with the U4 snRNA and U3 snoRNA."
      Dobbyn H.C., O'Keefe R.T.
      RNA 10:308-320(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, MUTAGENESIS OF GLU-59; VAL-81 AND ARG-84, RNA-BINDING.
    12. "Structural comparison of yeast snoRNP and spliceosomal protein Snu13p with its homologs."
      Oruganti S., Zhang Y., Li H.
      Biochem. Biophys. Res. Commun. 333:550-554(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (1.9 ANGSTROMS).

    Entry informationi

    Entry nameiSNU13_YEAST
    AccessioniPrimary (citable) accession number: P39990
    Secondary accession number(s): D3DLM2
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: February 1, 1995
    Last sequence update: February 1, 1995
    Last modified: October 1, 2014
    This is version 126 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programFungal Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    2. Ribosomal proteins
      Ribosomal proteins families and list of entries
    3. SIMILARITY comments
      Index of protein domains and families
    4. Yeast
      Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
    5. Yeast chromosome V
      Yeast (Saccharomyces cerevisiae) chromosome V: entries and gene names

    External Data

    Dasty 3