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Q9Z0H3 (SNF5_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 111. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended 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 names
Name:Smarcb1
Synonyms:Baf47, Ini1, Snf5l1
OrganismMus musculus (Mouse) [Reference proteome]
Taxonomic identifier10090 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus

Protein attributes

Sequence length385 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

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. 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. Ref.4

Subunit structure

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. Ref.3 Ref.4

Subcellular location

Nucleus.

Developmental stage

Expressed ubiquitously throughout the developing spinal cord, brain and other embryonic tissues at E10.5-E16.5. Ref.4

Sequence similarities

Belongs to the SNF5 family.

Ontologies

Keywords
   Biological processCell cycle
Neurogenesis
Transcription
Transcription regulation
   Cellular componentNucleus
   Coding sequence diversityAlternative splicing
   DiseaseTumor suppressor
   DomainRepeat
   Molecular functionActivator
Chromatin regulator
   PTMPhosphoprotein
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processATP-dependent chromatin remodeling

Inferred from Biological aspect of Ancestor. Source: RefGenome

DNA repair

Inferred from Biological aspect of Ancestor. Source: RefGenome

blastocyst development

Inferred from mutant phenotype PubMed 11263494PubMed 11313485. Source: MGI

blastocyst hatching

Inferred from mutant phenotype PubMed 11263494PubMed 11313485. Source: MGI

cell differentiation

Inferred from mutant phenotype PubMed 16138077. Source: MGI

mitotic cell cycle phase transition

Inferred from Biological aspect of Ancestor. Source: RefGenome

negative regulation of cell proliferation

Inferred from mutant phenotype PubMed 11095756PubMed 11263494PubMed 11313485. Source: MGI

nervous system development

Inferred from electronic annotation. Source: UniProtKB-KW

nucleosome disassembly

Inferred from Biological aspect of Ancestor. Source: RefGenome

positive regulation by host of viral transcription

Inferred from electronic annotation. Source: Ensembl

positive regulation of sequence-specific DNA binding transcription factor activity

Inferred from electronic annotation. Source: Ensembl

positive regulation of transcription from RNA polymerase II promoter

Inferred from electronic annotation. Source: Ensembl

regulation of transcription from RNA polymerase II promoter

Inferred from Biological aspect of Ancestor. Source: RefGenome

single stranded viral RNA replication via double stranded DNA intermediate

Inferred from electronic annotation. Source: Ensembl

transcription, DNA-templated

Inferred from electronic annotation. Source: UniProtKB-KW

   Cellular_componentSWI/SNF complex

Inferred from direct assay PubMed 16287714. Source: MGI

XY body

Inferred from direct assay Ref.3. Source: UniProtKB

nBAF complex

Inferred from direct assay Ref.4. Source: UniProtKB

npBAF complex

Inferred from direct assay Ref.4. Source: UniProtKB

nuclear chromosome

Inferred from electronic annotation. Source: InterPro

nucleolus

Inferred from electronic annotation. Source: Ensembl

nucleus

Inferred from direct assay Ref.3. Source: MGI

   Molecular_functionprotein binding

Inferred from physical interaction Ref.3. Source: UniProtKB

transcription coactivator activity

Inferred from electronic annotation. Source: Ensembl

Complete GO annotation...

Binary interactions

With

Entry

#Exp.

IntAct

Notes

Smarcc1P974965EBI-689365,EBI-648047

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]
Isoform A (identifier: Q9Z0H3-1)

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.
Isoform B (identifier: Q9Z0H3-2)

Also known as: INI1B;

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

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 385385SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1
PRO_0000205949

Regions

Repeat186 – 245601
Repeat259 – 319612
Region106 – 18378DNA-binding Potential
Region186 – 3191342 X approximate tandem repeats
Region186 – 24560MYC-binding By similarity
Region304 – 31815Interaction with PPP1R15A By similarity

Amino acid modifications

Modified residue1291Phosphoserine By similarity

Natural variations

Alternative sequence69 – 779Missing in isoform B.
VSP_004400

Sequences

Sequence LengthMass (Da)Tools
Isoform A (INI1A) [UniParc].

Last modified May 1, 1999. Version 1.
Checksum: B7BCA26875BD943D

FASTA38544,141
        10         20         30         40         50         60 
MMMMALSKTF GQKPVKFQLE DDGEFYMIGS EVGNYLRMFR GSLYKRYPSL WRRLATVEER 

        70         80         90        100        110        120 
KKIVASSHGK KTKPNTKDHG YTTLATSVTL LKASEVEEIL DGNDEKYKAV SISTEPPTYL 

       130        140        150        160        170        180 
REQKAKRNSQ WVPTLPNSSH HLDAVPCSTT INRNRMGRDK KRTFPLCFDD HDPAVIHENA 

       190        200        210        220        230        240 
SQPEVLVPIR LDMEIDGQKL RDAFTWNMNE KLMTPEMFSE ILCDDLDLNP LTFVPAIASA 

       250        260        270        280        290        300 
IRQQIESYPT DSILEDQSDQ RVIIKLNIHV GNISLVDQFE WDMSEKENSP EKFALKLCSE 

       310        320        330        340        350        360 
LGLGGEFVTT IAYSIRGQLS WHQKTYAFSE NPLPTVEIAI RNTGDADQWC PLLETLTDAE 

       370        380 
MEKKIRDQDR NTRRMRRLAN TAPAW 

« Hide

Isoform B (INI1B) [UniParc].

Checksum: 6C7233EAFBC389A9
Show »

FASTA37643,158

References

« Hide 'large scale' references
[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.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AJ011740 mRNA. Translation: CAA09761.1.
AJ011739 mRNA. Translation: CAA09760.1.
BC025163 mRNA. Translation: AAH25163.1.
CCDSCCDS23936.1. [Q9Z0H3-1]
CCDS48602.1. [Q9Z0H3-2]
RefSeqNP_035548.1. NM_011418.2. [Q9Z0H3-1]
UniGeneMm.279751.
Mm.405473.

3D structure databases

ProteinModelPortalQ9Z0H3.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid203337. 14 interactions.
DIPDIP-34373N.
IntActQ9Z0H3. 11 interactions.
MINTMINT-4135037.

PTM databases

PhosphoSiteQ9Z0H3.

Proteomic databases

MaxQBQ9Z0H3.
PaxDbQ9Z0H3.
PRIDEQ9Z0H3.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENSMUST00000000925; ENSMUSP00000000925; ENSMUSG00000000902. [Q9Z0H3-1]
ENSMUST00000121304; ENSMUSP00000112463; ENSMUSG00000000902. [Q9Z0H3-2]
GeneID20587.
KEGGmmu:20587.
UCSCuc007ftm.2. mouse. [Q9Z0H3-1]

Organism-specific databases

CTD6598.
MGIMGI:1328366. Smarcb1.

Phylogenomic databases

eggNOGNOG291299.
GeneTreeENSGT00440000038585.
HOGENOMHOG000015760.
HOVERGENHBG011709.
InParanoidQ9Z0H3.
KOK11648.
OMAQFAEVLC.
OrthoDBEOG7MSMP4.
PhylomeDBQ9Z0H3.
TreeFamTF105993.

Gene expression databases

ArrayExpressQ9Z0H3.
BgeeQ9Z0H3.
GenevestigatorQ9Z0H3.

Family and domain databases

InterProIPR006939. SNF5.
IPR017393. SWI_SNF_chromatin_remodel_cplx.
[Graphical view]
PANTHERPTHR10019. PTHR10019. 1 hit.
PfamPF04855. SNF5. 1 hit.
[Graphical view]
PIRSFPIRSF038126. SWI_SNF. 1 hit.
ProtoNetSearch...

Other

NextBio298887.
PROQ9Z0H3.
SOURCESearch...

Entry information

Entry nameSNF5_MOUSE
AccessionPrimary (citable) accession number: Q9Z0H3
Entry history
Integrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: May 1, 1999
Last modified: July 9, 2014
This is version 111 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

MGD cross-references

Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot