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Q9Z0H3

- SNF5_MOUSE

UniProt

Q9Z0H3 - SNF5_MOUSE

Protein

SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1

Gene

Smarcb1

Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 112 (01 Oct 2014)
      Sequence version 1 (01 May 1999)
      Previous versions | rss
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    Functioni

    Core component of the BAF (SWI/SNF) complex. This ATP-dependent chromatin-remodeling complex plays important roles in cell proliferation and differentiation, in cellular antiviral activities and inhibition of tumor formation. The BAF complex is able to create a stable, altered form of chromatin that constrains fewer negative supercoils than normal. This change in supercoiling would be due to the conversion of up to one-half of the nucleosomes on polynucleosomal arrays into asymmetric structures, termed altosomes, each composed of 2 histones octamers. Stimulates in vitro the remodeling activity of SMARCA4/BRG1/BAF190A. Plays a key role in cell-cycle control and causes cell cycle arrest in G0/G1. Also involved in vitamin D-coupled transcription regulation via its association with the WINAC complex, a chromatin-remodeling complex recruited by vitamin D receptor (VDR), which is required for the ligand-bound VDR-mediated transrepression of the CYP27B1 gene By similarity. Belongs to the neural progenitors-specific chromatin remodeling complex (npBAF complex) and the neuron-specific chromatin remodeling complex (nBAF complex). During neural development a switch from a stem/progenitor to a post-mitotic chromatin remodeling mechanism occurs as neurons exit the cell cycle and become committed to their adult state. The transition from proliferating neural stem/progenitor cells to post-mitotic neurons requires a switch in subunit composition of the npBAF and nBAF complexes. As neural progenitors exit mitosis and differentiate into neurons, npBAF complexes which contain ACTL6A/BAF53A and PHF10/BAF45A, are exchanged for homologous alternative ACTL6B/BAF53B and DPF1/BAF45B or DPF3/BAF45C subunits in neuron-specific complexes (nBAF). The npBAF complex is essential for the self-renewal/proliferative capacity of the multipotent neural stem cells. The nBAF complex along with CREST plays a role regulating the activity of genes essential for dendrite growth.By similarity1 Publication

    GO - Molecular functioni

    1. protein binding Source: UniProtKB
    2. transcription coactivator activity Source: Ensembl

    GO - Biological processi

    1. ATP-dependent chromatin remodeling Source: RefGenome
    2. blastocyst development Source: MGI
    3. blastocyst hatching Source: MGI
    4. cell differentiation Source: MGI
    5. DNA repair Source: RefGenome
    6. mitotic cell cycle phase transition Source: RefGenome
    7. negative regulation of cell proliferation Source: MGI
    8. nervous system development Source: UniProtKB-KW
    9. nucleosome disassembly Source: RefGenome
    10. positive regulation by host of viral transcription Source: Ensembl
    11. positive regulation of sequence-specific DNA binding transcription factor activity Source: Ensembl
    12. positive regulation of transcription from RNA polymerase II promoter Source: Ensembl
    13. regulation of transcription from RNA polymerase II promoter Source: RefGenome
    14. single stranded viral RNA replication via double stranded DNA intermediate Source: Ensembl
    15. transcription, DNA-templated Source: UniProtKB-KW

    Keywords - Molecular functioni

    Activator, Chromatin regulator

    Keywords - Biological processi

    Cell cycle, Neurogenesis, Transcription, Transcription regulation

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1
    Alternative name(s):
    BRG1-associated factor 47
    Short name:
    BAF47
    Integrase interactor 1 protein
    SNF5 homolog
    Short name:
    mSNF5
    Gene namesi
    Name:Smarcb1
    Synonyms:Baf47, Ini1, Snf5l1
    OrganismiMus musculus (Mouse)
    Taxonomic identifieri10090 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
    ProteomesiUP000000589: Chromosome 10

    Organism-specific databases

    MGIiMGI:1328366. Smarcb1.

    Subcellular locationi

    GO - Cellular componenti

    1. nBAF complex Source: UniProtKB
    2. npBAF complex Source: UniProtKB
    3. nuclear chromosome Source: InterPro
    4. nucleolus Source: Ensembl
    5. nucleus Source: MGI
    6. SWI/SNF complex Source: MGI
    7. XY body Source: UniProtKB

    Keywords - Cellular componenti

    Nucleus

    Pathology & Biotechi

    Keywords - Diseasei

    Tumor suppressor

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 385385SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1PRO_0000205949Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei129 – 1291PhosphoserineBy similarity

    Keywords - PTMi

    Phosphoprotein

    Proteomic databases

    MaxQBiQ9Z0H3.
    PaxDbiQ9Z0H3.
    PRIDEiQ9Z0H3.

    PTM databases

    PhosphoSiteiQ9Z0H3.

    Expressioni

    Developmental stagei

    Expressed ubiquitously throughout the developing spinal cord, brain and other embryonic tissues at E10.5-E16.5.1 Publication

    Gene expression databases

    ArrayExpressiQ9Z0H3.
    BgeeiQ9Z0H3.
    GenevestigatoriQ9Z0H3.

    Interactioni

    Subunit structurei

    Component of the BAF (hSWI/SNF) complex, which includes at least actin (ACTB), ARID1A, ARID1B/BAF250, SMARCA2, SMARCA4/BRG1/BAF190A, ACTL6A/BAF53, ACTL6B/BAF53B, SMARCE1/BAF57 SMARCC1/BAF155, SMARCC2/BAF170, SMARCB1/SNF5/INI1, and one or more of SMARCD1/BAF60A, SMARCD2/BAF60B, or SMARCD3/BAF60C. In muscle cells, the BAF complex also contains DPF3. Component of the WINAC complex, at least composed of SMARCA2, SMARCA4, SMARCB1, SMARCC1, SMARCC2, SMARCD1, SMARCE1, ACTL6A, BAZ1B/WSTF, ARID1A, SUPT16H, CHAF1A and TOP2B. Interacts with MYK and MAEL. Interacts with PPP1R15A By similarity. Component of neural progenitors-specific chromatin remodeling complex (npBAF complex) composed of at least, ARID1A/BAF250A or ARID1B/BAF250B, SMARCD1/BAF60A, SMARCD3/BAF60C, SMARCA2/BRM/BAF190B, SMARCA4/BRG1/BAF190A, SMARCB1/BAF47, SMARCC1/BAF155, SMARCE1/BAF57, SMARCC2/BAF170, PHF10/BAF45A, ACTL6A/BAF53A and actin. Component of neuron-specific chromatin remodeling complex (nBAF complex) composed of at least, ARID1A/BAF250A or ARID1B/BAF250B, SMARCD1/BAF60A, SMARCD3/BAF60C, SMARCA2/BRM/BAF190B, SMARCA4/BRG1/BAF190A, SMARCB1/BAF47, SMARCC1/BAF155, SMARCE1/BAF57, SMARCC2/BAF170, DPF1/BAF45B, DPF3/BAF45C, ACTL6B/BAF53B and actin.By similarity2 Publications

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    Smarcc1P974965EBI-689365,EBI-648047

    Protein-protein interaction databases

    BioGridi203337. 14 interactions.
    DIPiDIP-34373N.
    IntActiQ9Z0H3. 11 interactions.
    MINTiMINT-4135037.

    Structurei

    3D structure databases

    ProteinModelPortaliQ9Z0H3.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Repeati186 – 245601Add
    BLAST
    Repeati259 – 319612Add
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni106 – 18378DNA-bindingSequence AnalysisAdd
    BLAST
    Regioni186 – 3191342 X approximate tandem repeatsAdd
    BLAST
    Regioni186 – 24560MYC-bindingBy similarityAdd
    BLAST
    Regioni304 – 31815Interaction with PPP1R15ABy similarityAdd
    BLAST

    Sequence similaritiesi

    Belongs to the SNF5 family.Curated

    Keywords - Domaini

    Repeat

    Phylogenomic databases

    eggNOGiNOG291299.
    GeneTreeiENSGT00440000038585.
    HOGENOMiHOG000015760.
    HOVERGENiHBG011709.
    InParanoidiQ9Z0H3.
    KOiK11648.
    OMAiQFAEVLC.
    OrthoDBiEOG7MSMP4.
    PhylomeDBiQ9Z0H3.
    TreeFamiTF105993.

    Family and domain databases

    InterProiIPR006939. SNF5.
    IPR017393. SWI_SNF_chromatin_remodel_cplx.
    [Graphical view]
    PANTHERiPTHR10019. PTHR10019. 1 hit.
    PfamiPF04855. SNF5. 1 hit.
    [Graphical view]
    PIRSFiPIRSF038126. SWI_SNF. 1 hit.

    Sequences (2)i

    Sequence statusi: Complete.

    This entry describes 2 isoformsi produced by alternative splicing. Align

    Isoform A (identifier: Q9Z0H3-1) [UniParc]FASTAAdd to Basket

    Also known as: INI1A

    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

    MMMMALSKTF GQKPVKFQLE DDGEFYMIGS EVGNYLRMFR GSLYKRYPSL    50
    WRRLATVEER KKIVASSHGK KTKPNTKDHG YTTLATSVTL LKASEVEEIL 100
    DGNDEKYKAV SISTEPPTYL REQKAKRNSQ WVPTLPNSSH HLDAVPCSTT 150
    INRNRMGRDK KRTFPLCFDD HDPAVIHENA SQPEVLVPIR LDMEIDGQKL 200
    RDAFTWNMNE KLMTPEMFSE ILCDDLDLNP LTFVPAIASA IRQQIESYPT 250
    DSILEDQSDQ RVIIKLNIHV GNISLVDQFE WDMSEKENSP EKFALKLCSE 300
    LGLGGEFVTT IAYSIRGQLS WHQKTYAFSE NPLPTVEIAI RNTGDADQWC 350
    PLLETLTDAE MEKKIRDQDR NTRRMRRLAN TAPAW 385
    Length:385
    Mass (Da):44,141
    Last modified:May 1, 1999 - v1
    Checksum:iB7BCA26875BD943D
    GO
    Isoform B (identifier: Q9Z0H3-2) [UniParc]FASTAAdd to Basket

    Also known as: INI1B

    The sequence of this isoform differs from the canonical sequence as follows:
         69-77: Missing.

    Show »
    Length:376
    Mass (Da):43,158
    Checksum:i6C7233EAFBC389A9
    GO

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei69 – 779Missing in isoform B. 1 PublicationVSP_004400

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AJ011740 mRNA. Translation: CAA09761.1.
    AJ011739 mRNA. Translation: CAA09760.1.
    BC025163 mRNA. Translation: AAH25163.1.
    CCDSiCCDS23936.1. [Q9Z0H3-1]
    CCDS48602.1. [Q9Z0H3-2]
    RefSeqiNP_035548.1. NM_011418.2. [Q9Z0H3-1]
    UniGeneiMm.279751.
    Mm.405473.

    Genome annotation databases

    EnsembliENSMUST00000000925; ENSMUSP00000000925; ENSMUSG00000000902. [Q9Z0H3-1]
    ENSMUST00000121304; ENSMUSP00000112463; ENSMUSG00000000902. [Q9Z0H3-2]
    GeneIDi20587.
    KEGGimmu:20587.
    UCSCiuc007ftm.2. mouse. [Q9Z0H3-1]

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AJ011740 mRNA. Translation: CAA09761.1 .
    AJ011739 mRNA. Translation: CAA09760.1 .
    BC025163 mRNA. Translation: AAH25163.1 .
    CCDSi CCDS23936.1. [Q9Z0H3-1 ]
    CCDS48602.1. [Q9Z0H3-2 ]
    RefSeqi NP_035548.1. NM_011418.2. [Q9Z0H3-1 ]
    UniGenei Mm.279751.
    Mm.405473.

    3D structure databases

    ProteinModelPortali Q9Z0H3.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 203337. 14 interactions.
    DIPi DIP-34373N.
    IntActi Q9Z0H3. 11 interactions.
    MINTi MINT-4135037.

    PTM databases

    PhosphoSitei Q9Z0H3.

    Proteomic databases

    MaxQBi Q9Z0H3.
    PaxDbi Q9Z0H3.
    PRIDEi Q9Z0H3.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSMUST00000000925 ; ENSMUSP00000000925 ; ENSMUSG00000000902 . [Q9Z0H3-1 ]
    ENSMUST00000121304 ; ENSMUSP00000112463 ; ENSMUSG00000000902 . [Q9Z0H3-2 ]
    GeneIDi 20587.
    KEGGi mmu:20587.
    UCSCi uc007ftm.2. mouse. [Q9Z0H3-1 ]

    Organism-specific databases

    CTDi 6598.
    MGIi MGI:1328366. Smarcb1.

    Phylogenomic databases

    eggNOGi NOG291299.
    GeneTreei ENSGT00440000038585.
    HOGENOMi HOG000015760.
    HOVERGENi HBG011709.
    InParanoidi Q9Z0H3.
    KOi K11648.
    OMAi QFAEVLC.
    OrthoDBi EOG7MSMP4.
    PhylomeDBi Q9Z0H3.
    TreeFami TF105993.

    Miscellaneous databases

    NextBioi 298887.
    PROi Q9Z0H3.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi Q9Z0H3.
    Bgeei Q9Z0H3.
    Genevestigatori Q9Z0H3.

    Family and domain databases

    InterProi IPR006939. SNF5.
    IPR017393. SWI_SNF_chromatin_remodel_cplx.
    [Graphical view ]
    PANTHERi PTHR10019. PTHR10019. 1 hit.
    Pfami PF04855. SNF5. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF038126. SWI_SNF. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "The mouse ortholog of the human SMARCB1 gene encodes two splice forms."
      Bruder C.E., Dumanski J.P., Kedra D.
      Biochem. Biophys. Res. Commun. 257:886-890(1999) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS A AND B).
    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] (ISOFORM A).
      Strain: C57BL/6J.
      Tissue: Tongue.
    3. "Mouse MAELSTROM: the link between meiotic silencing of unsynapsed chromatin and microRNA pathway?"
      Costa Y., Speed R.M., Gautier P., Semple C.A., Maratou K., Turner J.M.A., Cooke H.J.
      Hum. Mol. Genet. 15:2324-2334(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: INTERACTION WITH MAEL.
    4. "An essential switch in subunit composition of a chromatin remodeling complex during neural development."
      Lessard J., Wu J.I., Ranish J.A., Wan M., Winslow M.M., Staahl B.T., Wu H., Aebersold R., Graef I.A., Crabtree G.R.
      Neuron 55:201-215(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION OF THE NBAF AND NPBAF COMPLEXES, IDENTIFICATION BY MASS SPECTROMETRY, IDENTIFICATION IN THE NBAF AND NPBAF COMPLEXES, DEVELOPMENTAL STAGE.

    Entry informationi

    Entry nameiSNF5_MOUSE
    AccessioniPrimary (citable) accession number: Q9Z0H3
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: December 1, 2000
    Last sequence update: May 1, 1999
    Last modified: October 1, 2014
    This is version 112 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