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SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1 (BRG1-associated factor 47) (BAF47) (Integrase interactor 1 protein) (SNF5 homolog) (mSNF5)

 SNF5_MOUSE              Reviewed;         385 AA.
Q9Z0H3;
01-DEC-2000, integrated into UniProtKB/Swiss-Prot.
01-MAY-1999, sequence version 1.
31-JAN-2018, entry version 145.
RecName: Full=SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1;
AltName: Full=BRG1-associated factor 47;
Short=BAF47;
AltName: Full=Integrase interactor 1 protein;
AltName: Full=SNF5 homolog;
Short=mSNF5;
Name=Smarcb1; Synonyms=Baf47, Ini1, Snf5l1;
Mus musculus (Mouse).
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
Muroidea; Muridae; Murinae; Mus; Mus.
NCBI_TaxID=10090;
[1]
NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS A AND B).
PubMed=10208879; DOI=10.1006/bbrc.1999.0563;
Bruder C.E., Dumanski J.P., Kedra D.;
"The mouse ortholog of the human SMARCB1 gene encodes two splice
forms.";
Biochem. Biophys. Res. Commun. 257:886-890(1999).
[2]
NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM A).
STRAIN=C57BL/6J; TISSUE=Tongue;
PubMed=15489334; DOI=10.1101/gr.2596504;
The MGC Project Team;
"The status, quality, and expansion of the NIH full-length cDNA
project: the Mammalian Gene Collection (MGC).";
Genome Res. 14:2121-2127(2004).
[3]
INTERACTION WITH MAEL.
PubMed=16787967; DOI=10.1093/hmg/ddl158;
Costa Y., Speed R.M., Gautier P., Semple C.A., Maratou K.,
Turner J.M.A., Cooke H.J.;
"Mouse MAELSTROM: the link between meiotic silencing of unsynapsed
chromatin and microRNA pathway?";
Hum. Mol. Genet. 15:2324-2334(2006).
[4]
FUNCTION OF THE NBAF AND NPBAF COMPLEXES, IDENTIFICATION BY MASS
SPECTROMETRY, IDENTIFICATION IN THE NBAF AND NPBAF COMPLEXES, AND
DEVELOPMENTAL STAGE.
PubMed=17640523; DOI=10.1016/j.neuron.2007.06.019;
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.;
"An essential switch in subunit composition of a chromatin remodeling
complex during neural development.";
Neuron 55:201-215(2007).
[5]
IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
TISSUE=Brain, Spleen, and Testis;
PubMed=21183079; DOI=10.1016/j.cell.2010.12.001;
Huttlin E.L., Jedrychowski M.P., Elias J.E., Goswami T., Rad R.,
Beausoleil S.A., Villen J., Haas W., Sowa M.E., Gygi S.P.;
"A tissue-specific atlas of mouse protein phosphorylation and
expression.";
Cell 143:1174-1189(2010).
[6]
INTERACTION WITH CEBPB.
PubMed=20111005; DOI=10.1038/emboj.2010.3;
Kowenz-Leutz E., Pless O., Dittmar G., Knoblich M., Leutz A.;
"Crosstalk between C/EBPbeta phosphorylation, arginine methylation,
and SWI/SNF/Mediator implies an indexing transcription factor code.";
EMBO J. 29:1105-1115(2010).
[7]
REVIEW ON SWI/SNF CHROMATIN REMODELING COMPLEXES.
PubMed=22952240; DOI=10.1074/jbc.R111.309302;
Euskirchen G., Auerbach R.K., Snyder M.;
"SWI/SNF chromatin-remodeling factors: multiscale analyses and diverse
functions.";
J. Biol. Chem. 287:30897-30905(2012).
[8]
REVIEW ON SWI/SNF CHROMATIN REMODELING COMPLEXES.
PubMed=26601204; DOI=10.1126/sciadv.1500447;
Kadoch C., Crabtree G.R.;
"Mammalian SWI/SNF chromatin remodeling complexes and cancer:
Mechanistic insights gained from human genomics.";
Sci. Adv. 1:E1500447-E1500447(2015).
-!- FUNCTION: 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 postmitotic
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 postmitotic
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. {ECO:0000250|UniProtKB:Q12824,
ECO:0000269|PubMed:17640523, ECO:0000303|PubMed:22952240,
ECO:0000303|PubMed:26601204}.
-!- SUBUNIT: Component of the multiprotein chromatin-remodeling
complexes SWI/SNF: SWI/SNF-A (BAF), SWI/SNF-B (PBAF) and related
complexes. The canonical complex contains a catalytic subunit
(either SMARCA4/BRG1/BAF190A or SMARCA2/BRM/BAF190B) and at least
SMARCE1, ACTL6A/BAF53, SMARCC1/BAF155, SMARCC2/BAF170, and
SMARCB1/SNF5/BAF47. Other subunits specific to each of the
complexes may also be present permitting several possible
combinations developmentally and tissue specific (Probable).
Component of the BAF complex, which includes at least actin
(ACTB), ARID1A/BAF250A, ARID1B/BAF250B, SMARCA2/BRM,
SMARCA4/BRG1/BAF190A, ACTL6A/BAF53, ACTL6B/BAF53B, SMARCE1/BAF57
SMARCC1/BAF155, SMARCC2/BAF170, SMARCB1/SNF5/INI1, and one or more
SMARCD1/BAF60A, SMARCD2/BAF60B, or SMARCD3/BAF60C (By similarity).
In muscle cells, the BAF complex also contains DPF3. 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 (PubMed:17640523). Component
of the SWI/SNF-B (PBAF) chromatin remodeling complex, at least
composed of SMARCA4/BRG1, SMARCB1/BAF47/SNF5, ACTL6A/BAF53A or
ACTL6B/BAF53B, SMARCE1/BAF57, SMARCD1/BAF60A, SMARCD2/BAF60B,
perhaps SMARCD3/BAF60C, SMARCC1/BAF155, SMARCC2/BAF170,
PBRM1/BAF180, ARID2/BAF200 and actin (PubMed:26601204). Binds to
double-stranded DNA. Interacts with CEBPB (when not methylated)
(PubMed:20111005). Interacts with PIH1D1. Interacts with MYK and
MAEL (PubMed:16787967). Interacts with PPP1R15A (By similarity).
{ECO:0000250|UniProtKB:Q12824, ECO:0000269|PubMed:16787967,
ECO:0000269|PubMed:17640523, ECO:0000269|PubMed:20111005,
ECO:0000303|PubMed:22952240, ECO:0000303|PubMed:26601204}.
-!- INTERACTION:
P97496:Smarcc1; NbExp=5; IntAct=EBI-689365, EBI-648047;
-!- SUBCELLULAR LOCATION: Nucleus.
-!- ALTERNATIVE PRODUCTS:
Event=Alternative splicing; Named isoforms=2;
Name=A; Synonyms=INI1A;
IsoId=Q9Z0H3-1; Sequence=Displayed;
Name=B; Synonyms=INI1B;
IsoId=Q9Z0H3-2; Sequence=VSP_004400;
-!- DEVELOPMENTAL STAGE: Expressed ubiquitously throughout the
developing spinal cord, brain and other embryonic tissues at
E10.5-E16.5. {ECO:0000269|PubMed:17640523}.
-!- DOMAIN: The N-terminal DNA-binding region is structurally similar
to winged helix domains. {ECO:0000250|UniProtKB:Q12824}.
-!- SIMILARITY: Belongs to the SNF5 family. {ECO:0000305}.
-----------------------------------------------------------------------
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EMBL; AJ011740; CAA09761.1; -; mRNA.
EMBL; AJ011739; CAA09760.1; -; mRNA.
EMBL; BC025163; AAH25163.1; -; mRNA.
CCDS; CCDS23936.1; -. [Q9Z0H3-1]
CCDS; CCDS48602.1; -. [Q9Z0H3-2]
RefSeq; NP_035548.1; NM_011418.2. [Q9Z0H3-1]
UniGene; Mm.279751; -.
UniGene; Mm.405473; -.
ProteinModelPortal; Q9Z0H3; -.
SMR; Q9Z0H3; -.
BioGrid; 203337; 14.
CORUM; Q9Z0H3; -.
DIP; DIP-34373N; -.
IntAct; Q9Z0H3; 13.
MINT; MINT-4135037; -.
STRING; 10090.ENSMUSP00000000925; -.
iPTMnet; Q9Z0H3; -.
PhosphoSitePlus; Q9Z0H3; -.
EPD; Q9Z0H3; -.
PaxDb; Q9Z0H3; -.
PRIDE; Q9Z0H3; -.
Ensembl; ENSMUST00000000925; ENSMUSP00000000925; ENSMUSG00000000902. [Q9Z0H3-1]
Ensembl; ENSMUST00000121304; ENSMUSP00000112463; ENSMUSG00000000902. [Q9Z0H3-2]
GeneID; 20587; -.
KEGG; mmu:20587; -.
UCSC; uc007ftm.2; mouse. [Q9Z0H3-1]
CTD; 6598; -.
MGI; MGI:1328366; Smarcb1.
eggNOG; KOG1649; Eukaryota.
eggNOG; ENOG410XSZD; LUCA.
GeneTree; ENSGT00440000038585; -.
HOGENOM; HOG000015760; -.
HOVERGEN; HBG011709; -.
InParanoid; Q9Z0H3; -.
KO; K11648; -.
OMA; EADQWCP; -.
OrthoDB; EOG091G0AOO; -.
PhylomeDB; Q9Z0H3; -.
TreeFam; TF105993; -.
Reactome; R-MMU-3214858; RMTs methylate histone arginines.
Reactome; R-MMU-8939243; RUNX1 interacts with co-factors whose precise effect on RUNX1 targets is not known.
PRO; PR:Q9Z0H3; -.
Proteomes; UP000000589; Chromosome 10.
Bgee; ENSMUSG00000000902; -.
ExpressionAtlas; Q9Z0H3; baseline and differential.
Genevisible; Q9Z0H3; MM.
GO; GO:0001650; C:fibrillar center; ISO:MGI.
GO; GO:0043231; C:intracellular membrane-bounded organelle; ISO:MGI.
GO; GO:0071565; C:nBAF complex; IDA:UniProtKB.
GO; GO:0071564; C:npBAF complex; IDA:UniProtKB.
GO; GO:0000790; C:nuclear chromatin; ISO:MGI.
GO; GO:0005730; C:nucleolus; ISO:MGI.
GO; GO:0005654; C:nucleoplasm; ISO:MGI.
GO; GO:0005634; C:nucleus; IDA:MGI.
GO; GO:0043234; C:protein complex; ISO:MGI.
GO; GO:0016514; C:SWI/SNF complex; IDA:MGI.
GO; GO:0001741; C:XY body; IDA:UniProtKB.
GO; GO:0003677; F:DNA binding; ISS:UniProtKB.
GO; GO:0002039; F:p53 binding; ISO:MGI.
GO; GO:0001164; F:RNA polymerase I CORE element sequence-specific DNA binding; ISO:MGI.
GO; GO:0030957; F:Tat protein binding; ISO:MGI.
GO; GO:0003713; F:transcription coactivator activity; ISO:MGI.
GO; GO:0043044; P:ATP-dependent chromatin remodeling; ISO:MGI.
GO; GO:0001824; P:blastocyst development; IMP:MGI.
GO; GO:0001835; P:blastocyst hatching; IMP:MGI.
GO; GO:0007049; P:cell cycle; IEA:UniProtKB-KW.
GO; GO:0030154; P:cell differentiation; IMP:MGI.
GO; GO:0006338; P:chromatin remodeling; ISO:MGI.
GO; GO:0016569; P:covalent chromatin modification; IEA:UniProtKB-KW.
GO; GO:0006281; P:DNA repair; IBA:GO_Central.
GO; GO:0008285; P:negative regulation of cell proliferation; IMP:MGI.
GO; GO:1900110; P:negative regulation of histone H3-K9 dimethylation; ISO:MGI.
GO; GO:1900113; P:negative regulation of histone H3-K9 trimethylation; ISO:MGI.
GO; GO:0007399; P:nervous system development; IEA:UniProtKB-KW.
GO; GO:0006337; P:nucleosome disassembly; ISO:MGI.
GO; GO:0043923; P:positive regulation by host of viral transcription; ISO:MGI.
GO; GO:0051091; P:positive regulation of DNA binding transcription factor activity; ISO:MGI.
GO; GO:1902661; P:positive regulation of glucose mediated signaling pathway; ISO:MGI.
GO; GO:2000617; P:positive regulation of histone H3-K9 acetylation; ISO:MGI.
GO; GO:0090240; P:positive regulation of histone H4 acetylation; ISO:MGI.
GO; GO:0045944; P:positive regulation of transcription from RNA polymerase II promoter; ISO:MGI.
GO; GO:1901838; P:positive regulation of transcription of nuclear large rRNA transcript from RNA polymerase I promoter; ISO:MGI.
GO; GO:0006357; P:regulation of transcription from RNA polymerase II promoter; IBA:GO_Central.
GO; GO:0039692; P:single stranded viral RNA replication via double stranded DNA intermediate; ISO:MGI.
GO; GO:0006351; P:transcription, DNA-templated; IEA:UniProtKB-KW.
InterPro; IPR017393; Sfh1/SNF5.
InterPro; IPR006939; SNF5.
PANTHER; PTHR10019; PTHR10019; 1.
Pfam; PF04855; SNF5; 2.
PIRSF; PIRSF038126; SWI_SNF; 1.
1: Evidence at protein level;
Activator; Alternative splicing; Cell cycle; Chromatin regulator;
Complete proteome; DNA-binding; Isopeptide bond; Neurogenesis;
Nucleus; Phosphoprotein; Reference proteome; Repeat; Transcription;
Transcription regulation; Tumor suppressor; Ubl conjugation.
CHAIN 1 385 SWI/SNF-related matrix-associated actin-
dependent regulator of chromatin
subfamily B member 1.
/FTId=PRO_0000205949.
REPEAT 186 245 1.
REPEAT 259 319 2.
REGION 1 113 DNA-binding.
{ECO:0000250|UniProtKB:Q12824}.
REGION 186 319 2 X approximate tandem repeats.
REGION 186 245 MYC-binding.
{ECO:0000250|UniProtKB:Q12824}.
REGION 304 318 Interaction with PPP1R15A.
{ECO:0000250|UniProtKB:Q12824}.
MOD_RES 129 129 Phosphoserine.
{ECO:0000250|UniProtKB:Q12824}.
CROSSLNK 106 106 Glycyl lysine isopeptide (Lys-Gly)
(interchain with G-Cter in SUMO2).
{ECO:0000250|UniProtKB:Q12824}.
CROSSLNK 108 108 Glycyl lysine isopeptide (Lys-Gly)
(interchain with G-Cter in SUMO2).
{ECO:0000250|UniProtKB:Q12824}.
CROSSLNK 124 124 Glycyl lysine isopeptide (Lys-Gly)
(interchain with G-Cter in SUMO2).
{ECO:0000250|UniProtKB:Q12824}.
CROSSLNK 161 161 Glycyl lysine isopeptide (Lys-Gly)
(interchain with G-Cter in SUMO2).
{ECO:0000250|UniProtKB:Q12824}.
VAR_SEQ 69 77 Missing (in isoform B).
{ECO:0000303|PubMed:10208879}.
/FTId=VSP_004400.
SEQUENCE 385 AA; 44141 MW; B7BCA26875BD943D CRC64;
MMMMALSKTF GQKPVKFQLE DDGEFYMIGS EVGNYLRMFR GSLYKRYPSL WRRLATVEER
KKIVASSHGK KTKPNTKDHG YTTLATSVTL LKASEVEEIL DGNDEKYKAV SISTEPPTYL
REQKAKRNSQ WVPTLPNSSH HLDAVPCSTT INRNRMGRDK KRTFPLCFDD HDPAVIHENA
SQPEVLVPIR LDMEIDGQKL RDAFTWNMNE KLMTPEMFSE ILCDDLDLNP LTFVPAIASA
IRQQIESYPT DSILEDQSDQ RVIIKLNIHV GNISLVDQFE WDMSEKENSP EKFALKLCSE
LGLGGEFVTT IAYSIRGQLS WHQKTYAFSE NPLPTVEIAI RNTGDADQWC PLLETLTDAE
MEKKIRDQDR NTRRMRRLAN TAPAW


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