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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: Annotation score: 5 out of 5-Experimental evidence at protein leveli

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. 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. p53 binding Source: MGI
  2. RNA polymerase II core promoter proximal region sequence-specific DNA binding Source: Ensembl
  3. RNA polymerase II distal enhancer sequence-specific DNA binding Source: Ensembl
  4. Tat protein binding Source: MGI
  5. transcription coactivator activity Source: MGI

GO - Biological processi

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

Keywords - Molecular functioni

Activator, Chromatin regulator

Keywords - Biological processi

Cell cycle, Neurogenesis, Transcription, Transcription regulation

Enzyme and pathway databases

ReactomeiREACT_319868. RMTs methylate histone arginines.

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 Componenti: Chromosome 10

Organism-specific databases

MGIiMGI:1328366. Smarcb1.

Subcellular locationi

GO - Cellular componenti

  1. BAF-type complex Source: MGI
  2. nBAF complex Source: UniProtKB
  3. npBAF complex Source: UniProtKB
  4. nuclear chromatin Source: MGI
  5. nucleolus Source: MGI
  6. nucleoplasm Source: MGI
  7. nucleus Source: MGI
  8. protein complex Source: MGI
  9. SWI/SNF complex Source: MGI
  10. XY body Source: UniProtKB
Complete GO annotation...

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

BgeeiQ9Z0H3.
ExpressionAtlasiQ9Z0H3. baseline and differential.
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. 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.
OMAiAFLHTNI.
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. AlignAdd to basket

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

        10         20         30         40         50
MMMMALSKTF GQKPVKFQLE DDGEFYMIGS EVGNYLRMFR GSLYKRYPSL
60 70 80 90 100
WRRLATVEER KKIVASSHGK KTKPNTKDHG YTTLATSVTL LKASEVEEIL
110 120 130 140 150
DGNDEKYKAV SISTEPPTYL REQKAKRNSQ WVPTLPNSSH HLDAVPCSTT
160 170 180 190 200
INRNRMGRDK KRTFPLCFDD HDPAVIHENA SQPEVLVPIR LDMEIDGQKL
210 220 230 240 250
RDAFTWNMNE KLMTPEMFSE ILCDDLDLNP LTFVPAIASA IRQQIESYPT
260 270 280 290 300
DSILEDQSDQ RVIIKLNIHV GNISLVDQFE WDMSEKENSP EKFALKLCSE
310 320 330 340 350
LGLGGEFVTT IAYSIRGQLS WHQKTYAFSE NPLPTVEIAI RNTGDADQWC
360 370 380
PLLETLTDAE MEKKIRDQDR NTRRMRRLAN TAPAW
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:
EMBLi
GenBanki
DDBJi
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:
EMBLi
GenBanki
DDBJi
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.

3D structure databases

ProteinModelPortaliQ9Z0H3.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

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

PTM databases

PhosphoSiteiQ9Z0H3.

Proteomic databases

MaxQBiQ9Z0H3.
PaxDbiQ9Z0H3.
PRIDEiQ9Z0H3.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

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

Organism-specific databases

CTDi6598.
MGIiMGI:1328366. Smarcb1.

Phylogenomic databases

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

Enzyme and pathway databases

ReactomeiREACT_319868. RMTs methylate histone arginines.

Miscellaneous databases

NextBioi298887.
PROiQ9Z0H3.
SOURCEiSearch...

Gene expression databases

BgeeiQ9Z0H3.
ExpressionAtlasiQ9Z0H3. baseline and differential.
GenevestigatoriQ9Z0H3.

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.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  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: April 1, 2015
This is version 118 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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.