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Q9Y333

- LSM2_HUMAN

UniProt

Q9Y333 - LSM2_HUMAN

Protein

U6 snRNA-associated Sm-like protein LSm2

Gene

LSM2

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
  1. Functioni

    Binds specifically to the 3'-terminal U-tract of U6 snRNA. May be involved in pre-mRNA splicing.

    GO - Molecular functioni

    1. poly(A) RNA binding Source: UniProtKB
    2. protein binding Source: IntAct
    3. U6 snRNA binding Source: UniProtKB

    GO - Biological processi

    1. exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay Source: Reactome
    2. gene expression Source: Reactome
    3. mRNA metabolic process Source: Reactome
    4. mRNA splicing, via spliceosome Source: UniProtKB
    5. nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay Source: Reactome
    6. RNA metabolic process Source: Reactome
    7. RNA splicing Source: Reactome

    Keywords - Molecular functioni

    Ribonucleoprotein

    Keywords - Biological processi

    mRNA processing, mRNA splicing

    Keywords - Ligandi

    RNA-binding

    Enzyme and pathway databases

    ReactomeiREACT_1753. mRNA Splicing - Minor Pathway.
    REACT_20518. mRNA decay by 5' to 3' exoribonuclease.
    REACT_467. mRNA Splicing - Major Pathway.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    U6 snRNA-associated Sm-like protein LSm2
    Alternative name(s):
    Protein G7b
    Small nuclear ribonuclear protein D homolog
    snRNP core Sm-like protein Sm-x5
    Gene namesi
    Name:LSM2
    Synonyms:C6orf28, G7B
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 6

    Organism-specific databases

    HGNCiHGNC:13940. LSM2.

    Subcellular locationi

    Nucleus Curated

    GO - Cellular componenti

    1. catalytic step 2 spliceosome Source: UniProtKB
    2. cytosol Source: Reactome
    3. nucleoplasm Source: Reactome

    Keywords - Cellular componenti

    Nucleus, Spliceosome

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA25929.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 9595U6 snRNA-associated Sm-like protein LSm2PRO_0000125556Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei79 – 791Phosphothreonine1 Publication

    Keywords - PTMi

    Phosphoprotein

    Proteomic databases

    MaxQBiQ9Y333.
    PaxDbiQ9Y333.
    PeptideAtlasiQ9Y333.
    PRIDEiQ9Y333.

    PTM databases

    PhosphoSiteiQ9Y333.

    Expressioni

    Gene expression databases

    BgeeiQ9Y333.
    CleanExiHS_LSM2.
    GenevestigatoriQ9Y333.

    Organism-specific databases

    HPAiHPA052805.

    Interactioni

    Subunit structurei

    Identified in the spliceosome C complex. LSm subunits form a heteromer with a doughnut shape.1 Publication

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    LSM1O151163EBI-347416,EBI-347619
    LSM3P6231011EBI-347416,EBI-348239
    LSM7Q9UK455EBI-347416,EBI-348372
    LSM8O957776EBI-347416,EBI-347779
    SNRPD2P623163EBI-347416,EBI-297993
    ZNF408Q9H9D44EBI-347416,EBI-347633

    Protein-protein interaction databases

    BioGridi121778. 46 interactions.
    DIPiDIP-31139N.
    IntActiQ9Y333. 26 interactions.
    MINTiMINT-1032572.
    STRINGi9606.ENSP00000364813.

    Structurei

    3D structure databases

    ProteinModelPortaliQ9Y333.
    SMRiQ9Y333. Positions 1-89.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the snRNP Sm proteins family.Curated

    Phylogenomic databases

    eggNOGiCOG1958.
    HOGENOMiHOG000166937.
    HOVERGENiHBG000486.
    InParanoidiQ9Y333.
    KOiK12621.
    OMAiKLDNISC.
    OrthoDBiEOG7DNNXM.
    PhylomeDBiQ9Y333.
    TreeFamiTF314960.

    Family and domain databases

    InterProiIPR010920. LSM_dom.
    IPR001163. Ribonucl_LSM.
    IPR006649. Ribonucl_LSM_euk/arc.
    IPR016654. U6_snRNA_Lsm2.
    [Graphical view]
    PANTHERiPTHR13829. PTHR13829. 1 hit.
    PfamiPF01423. LSM. 1 hit.
    [Graphical view]
    PIRSFiPIRSF016394. U6_snRNA_Lsm2. 1 hit.
    SMARTiSM00651. Sm. 1 hit.
    [Graphical view]
    SUPFAMiSSF50182. SSF50182. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    Q9Y333-1 [UniParc]FASTAAdd to Basket

    « Hide

    MLFYSFFKSL VGKDVVVELK NDLSICGTLH SVDQYLNIKL TDISVTDPEK   50
    YPHMLSVKNC FIRGSVVRYV QLPADEVDTQ LLQDAARKEA LQQKQ 95
    Length:95
    Mass (Da):10,835
    Last modified:November 1, 1999 - v1
    Checksum:i623591A09A6ABACE
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF182288 mRNA. Translation: AAD56226.1.
    AJ245416 mRNA. Translation: CAB52190.1.
    AF196468 mRNA. Translation: AAG33023.1.
    AF134726 Genomic DNA. Translation: AAD21818.1.
    BA000025 Genomic DNA. Translation: BAB63302.1.
    AF136977 mRNA. Translation: AAG49438.1.
    CR542146 mRNA. Translation: CAG46943.1.
    CR542157 mRNA. Translation: CAG46954.1.
    AL929592 Genomic DNA. Translation: CAI18462.1.
    CR759915 Genomic DNA. Translation: CAQ07255.1.
    CR759787 Genomic DNA. Translation: CAQ10128.1.
    CR925765 Genomic DNA. Translation: CAQ10626.1.
    CH471081 Genomic DNA. Translation: EAX03525.1.
    BC009192 mRNA. Translation: AAH09192.1.
    CCDSiCCDS4722.1.
    RefSeqiNP_067000.1. NM_021177.4.
    UniGeneiHs.103106.

    Genome annotation databases

    EnsembliENST00000375661; ENSP00000364813; ENSG00000204392.
    ENST00000383391; ENSP00000372883; ENSG00000172850.
    ENST00000424975; ENSP00000403345; ENSG00000231502.
    ENST00000432122; ENSP00000414006; ENSG00000224979.
    ENST00000434125; ENSP00000406280; ENSG00000225998.
    ENST00000455705; ENSP00000414634; ENSG00000236826.
    GeneIDi57819.
    KEGGihsa:57819.
    UCSCiuc003nxg.3. human.

    Polymorphism databases

    DMDMi10720079.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF182288 mRNA. Translation: AAD56226.1 .
    AJ245416 mRNA. Translation: CAB52190.1 .
    AF196468 mRNA. Translation: AAG33023.1 .
    AF134726 Genomic DNA. Translation: AAD21818.1 .
    BA000025 Genomic DNA. Translation: BAB63302.1 .
    AF136977 mRNA. Translation: AAG49438.1 .
    CR542146 mRNA. Translation: CAG46943.1 .
    CR542157 mRNA. Translation: CAG46954.1 .
    AL929592 Genomic DNA. Translation: CAI18462.1 .
    CR759915 Genomic DNA. Translation: CAQ07255.1 .
    CR759787 Genomic DNA. Translation: CAQ10128.1 .
    CR925765 Genomic DNA. Translation: CAQ10626.1 .
    CH471081 Genomic DNA. Translation: EAX03525.1 .
    BC009192 mRNA. Translation: AAH09192.1 .
    CCDSi CCDS4722.1.
    RefSeqi NP_067000.1. NM_021177.4.
    UniGenei Hs.103106.

    3D structure databases

    ProteinModelPortali Q9Y333.
    SMRi Q9Y333. Positions 1-89.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 121778. 46 interactions.
    DIPi DIP-31139N.
    IntActi Q9Y333. 26 interactions.
    MINTi MINT-1032572.
    STRINGi 9606.ENSP00000364813.

    PTM databases

    PhosphoSitei Q9Y333.

    Polymorphism databases

    DMDMi 10720079.

    Proteomic databases

    MaxQBi Q9Y333.
    PaxDbi Q9Y333.
    PeptideAtlasi Q9Y333.
    PRIDEi Q9Y333.

    Protocols and materials databases

    DNASUi 57819.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000375661 ; ENSP00000364813 ; ENSG00000204392 .
    ENST00000383391 ; ENSP00000372883 ; ENSG00000172850 .
    ENST00000424975 ; ENSP00000403345 ; ENSG00000231502 .
    ENST00000432122 ; ENSP00000414006 ; ENSG00000224979 .
    ENST00000434125 ; ENSP00000406280 ; ENSG00000225998 .
    ENST00000455705 ; ENSP00000414634 ; ENSG00000236826 .
    GeneIDi 57819.
    KEGGi hsa:57819.
    UCSCi uc003nxg.3. human.

    Organism-specific databases

    CTDi 57819.
    GeneCardsi GC06M031765.
    GC06Mi31776.
    GC06Mj31752.
    GC06Mk31747.
    GC06Mm31841.
    GC06Mn31755.
    HGNCi HGNC:13940. LSM2.
    HPAi HPA052805.
    MIMi 607282. gene.
    neXtProti NX_Q9Y333.
    PharmGKBi PA25929.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi COG1958.
    HOGENOMi HOG000166937.
    HOVERGENi HBG000486.
    InParanoidi Q9Y333.
    KOi K12621.
    OMAi KLDNISC.
    OrthoDBi EOG7DNNXM.
    PhylomeDBi Q9Y333.
    TreeFami TF314960.

    Enzyme and pathway databases

    Reactomei REACT_1753. mRNA Splicing - Minor Pathway.
    REACT_20518. mRNA decay by 5' to 3' exoribonuclease.
    REACT_467. mRNA Splicing - Major Pathway.

    Miscellaneous databases

    GeneWikii LSM2.
    GenomeRNAii 57819.
    NextBioi 64772.
    PROi Q9Y333.
    SOURCEi Search...

    Gene expression databases

    Bgeei Q9Y333.
    CleanExi HS_LSM2.
    Genevestigatori Q9Y333.

    Family and domain databases

    InterProi IPR010920. LSM_dom.
    IPR001163. Ribonucl_LSM.
    IPR006649. Ribonucl_LSM_euk/arc.
    IPR016654. U6_snRNA_Lsm2.
    [Graphical view ]
    PANTHERi PTHR13829. PTHR13829. 1 hit.
    Pfami PF01423. LSM. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF016394. U6_snRNA_Lsm2. 1 hit.
    SMARTi SM00651. Sm. 1 hit.
    [Graphical view ]
    SUPFAMi SSF50182. SSF50182. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "A doughnut-shaped heteromer of human Sm-like proteins binds to the 3'-end of U6 snRNA, thereby facilitating U4/U6 duplex formation in vitro."
      Achsel T., Brahms H., Kastner B., Bachi A., Wilm M., Luehrmann R.
      EMBO J. 18:5789-5802(1999) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA], PARTIAL PROTEIN SEQUENCE.
    2. "Characterisation of the novel gene G7b located in the class III region of the human major histocompatibility complex."
      Olavesen M.G., Campbell R.D.
      Submitted (AUG-1999) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    3. "Human SMX5 homolog."
      Schmarda A., Fresser F., Paulmichl M.
      Submitted (OCT-1999) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    4. "Analysis of the gene-dense major histocompatibility complex class III region and its comparison to mouse."
      Xie T., Rowen L., Aguado B., Ahearn M.E., Madan A., Qin S., Campbell R.D., Hood L.
      Genome Res. 13:2621-2636(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    5. "Homo sapiens 2,229,817bp genomic DNA of 6p21.3 HLA class I region."
      Shiina S., Tamiya G., Oka A., Inoko H.
      Submitted (SEP-1999) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    6. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Tissue: Hypothalamus.
    7. "Cloning of human full open reading frames in Gateway(TM) system entry vector (pDONR201)."
      Ebert L., Schick M., Neubert P., Schatten R., Henze S., Korn B.
      Submitted (JUN-2004) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    8. "The DNA sequence and analysis of human chromosome 6."
      Mungall A.J., Palmer S.A., Sims S.K., Edwards C.A., Ashurst J.L., Wilming L., Jones M.C., Horton R., Hunt S.E., Scott C.E., Gilbert J.G.R., Clamp M.E., Bethel G., Milne S., Ainscough R., Almeida J.P., Ambrose K.D., Andrews T.D.
      , Ashwell R.I.S., Babbage A.K., Bagguley C.L., Bailey J., Banerjee R., Barker D.J., Barlow K.F., Bates K., Beare D.M., Beasley H., Beasley O., Bird C.P., Blakey S.E., Bray-Allen S., Brook J., Brown A.J., Brown J.Y., Burford D.C., Burrill W., Burton J., Carder C., Carter N.P., Chapman J.C., Clark S.Y., Clark G., Clee C.M., Clegg S., Cobley V., Collier R.E., Collins J.E., Colman L.K., Corby N.R., Coville G.J., Culley K.M., Dhami P., Davies J., Dunn M., Earthrowl M.E., Ellington A.E., Evans K.A., Faulkner L., Francis M.D., Frankish A., Frankland J., French L., Garner P., Garnett J., Ghori M.J., Gilby L.M., Gillson C.J., Glithero R.J., Grafham D.V., Grant M., Gribble S., Griffiths C., Griffiths M.N.D., Hall R., Halls K.S., Hammond S., Harley J.L., Hart E.A., Heath P.D., Heathcott R., Holmes S.J., Howden P.J., Howe K.L., Howell G.R., Huckle E., Humphray S.J., Humphries M.D., Hunt A.R., Johnson C.M., Joy A.A., Kay M., Keenan S.J., Kimberley A.M., King A., Laird G.K., Langford C., Lawlor S., Leongamornlert D.A., Leversha M., Lloyd C.R., Lloyd D.M., Loveland J.E., Lovell J., Martin S., Mashreghi-Mohammadi M., Maslen G.L., Matthews L., McCann O.T., McLaren S.J., McLay K., McMurray A., Moore M.J.F., Mullikin J.C., Niblett D., Nickerson T., Novik K.L., Oliver K., Overton-Larty E.K., Parker A., Patel R., Pearce A.V., Peck A.I., Phillimore B.J.C.T., Phillips S., Plumb R.W., Porter K.M., Ramsey Y., Ranby S.A., Rice C.M., Ross M.T., Searle S.M., Sehra H.K., Sheridan E., Skuce C.D., Smith S., Smith M., Spraggon L., Squares S.L., Steward C.A., Sycamore N., Tamlyn-Hall G., Tester J., Theaker A.J., Thomas D.W., Thorpe A., Tracey A., Tromans A., Tubby B., Wall M., Wallis J.M., West A.P., White S.S., Whitehead S.L., Whittaker H., Wild A., Willey D.J., Wilmer T.E., Wood J.M., Wray P.W., Wyatt J.C., Young L., Younger R.M., Bentley D.R., Coulson A., Durbin R.M., Hubbard T., Sulston J.E., Dunham I., Rogers J., Beck S.
      Nature 425:805-811(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    9. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    10. "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].
      Tissue: Placenta.
    11. "Purification and characterization of native spliceosomes suitable for three-dimensional structural analysis."
      Jurica M.S., Licklider L.J., Gygi S.P., Grigorieff N., Moore M.J.
      RNA 8:426-439(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION BY MASS SPECTROMETRY, IDENTIFICATION IN THE SPLICEOSOMAL C COMPLEX.
    12. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-79, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
      Tissue: Embryonic kidney.
    13. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

    Entry informationi

    Entry nameiLSM2_HUMAN
    AccessioniPrimary (citable) accession number: Q9Y333
    Secondary accession number(s): Q6FGG1
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: December 1, 2000
    Last sequence update: November 1, 1999
    Last modified: October 1, 2014
    This is version 142 of the entry and version 1 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 6
      Human chromosome 6: 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