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Protein

SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 2

Gene

Smarcd2

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Involved in transcriptional activation and repression of select genes by chromatin remodeling (alteration of DNA-nucleosome topology). Component of SWI/SNF chromatin remodeling complexes that carry out key enzymatic activities, changing chromatin structure by altering DNA-histone contacts within a nucleosome in an ATP-dependent manner. Critical regulator of myeloid differentiation, controlling granulocytopoiesis and the expression of genes involved in neutrophil granule formation.By similarity

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionChromatin regulator
Biological processTranscription, Transcription regulation

Enzyme and pathway databases

ReactomeiR-MMU-3214858. RMTs methylate histone arginines.
R-MMU-8939243. RUNX1 interacts with co-factors whose precise effect on RUNX1 targets is not known.

Names & Taxonomyi

Protein namesi
Recommended name:
SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 2
Alternative name(s):
60 kDa BRG-1/Brm-associated factor subunit B
BRG1-associated factor 60B
Short name:
BAF60B
Gene namesi
Name:Smarcd2
Synonyms:Baf60b
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 11

Organism-specific databases

MGIiMGI:1933621. Smarcd2.

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000719861 – 531SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 2Add BLAST531

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei81Asymmetric dimethylarginineBy similarity1
Modified residuei104Asymmetric dimethylarginineBy similarity1
Modified residuei203PhosphoserineBy similarity1
Modified residuei217PhosphothreonineCombined sources1
Cross-linki226Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity

Post-translational modificationi

Ubiquitinated through a signaling process involving RAC1 and the RING finger protein UNKL.By similarity

Keywords - PTMi

Isopeptide bond, Methylation, Phosphoprotein, Ubl conjugation

Proteomic databases

PaxDbiQ99JR8.
PeptideAtlasiQ99JR8.
PRIDEiQ99JR8.

PTM databases

iPTMnetiQ99JR8.
PhosphoSitePlusiQ99JR8.

Expressioni

Gene expression databases

BgeeiENSMUSG00000078619.
ExpressionAtlasiQ99JR8. baseline and differential.
GenevisibleiQ99JR8. MM.

Interactioni

Subunit structurei

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. Component of the BAF complex, which includes at least actin (ACTB), ARID1A/BAF250A, ARID1B/BAF250B, SMARCA2/BRM, SMARCA4/BRG1, ACTL6A/BAF53, ACTL6B/BAF53B, SMARCE1/BAF57, SMARCC1/BAF155, SMARCC2/BAF170, SMARCB1/SNF5/INI1, and one or more SMARCD1/BAF60A, SMARCD2/BAF60B, or SMARCD3/BAF60C. In muscle cells, the BAF complex also contains DPF3. 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 (ACTB). Interacts with UNKL. Interacts with CEBPE.By similarity

Protein-protein interaction databases

BioGridi219976. 3 interactors.
CORUMiQ99JR8.
DIPiDIP-58950N.
IntActiQ99JR8. 5 interactors.
MINTiMINT-4134926.
STRINGi10090.ENSMUSP00000021052.

Structurei

3D structure databases

ProteinModelPortaliQ99JR8.
SMRiQ99JR8.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini307 – 382SWIBAdd BLAST76

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi10 – 129Pro-richAdd BLAST120

Sequence similaritiesi

Belongs to the SMARCD family.Curated

Phylogenomic databases

eggNOGiKOG2570. Eukaryota.
COG5531. LUCA.
GeneTreeiENSGT00390000017809.
HOGENOMiHOG000240746.
HOVERGENiHBG054046.
InParanoidiQ99JR8.
KOiK11650.
OMAiMRFSEIP.
OrthoDBiEOG091G06WW.
PhylomeDBiQ99JR8.
TreeFamiTF106486.

Family and domain databases

Gene3Di1.10.245.10. 1 hit.
InterProiView protein in InterPro
IPR030090. BAF60B.
IPR019835. SWIB_domain.
IPR036885. SWIB_MDM2_dom_sf.
IPR003121. SWIB_MDM2_domain.
PANTHERiPTHR13844:SF2. PTHR13844:SF2. 1 hit.
PfamiView protein in Pfam
PF02201. SWIB. 1 hit.
SMARTiView protein in SMART
SM00151. SWIB. 1 hit.
SUPFAMiSSF47592. SSF47592. 1 hit.

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q99JR8-1) [UniParc]FASTAAdd to basket

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
MSGRGAGGFP LPPLSPGGGA VAAALGAPPP PAGPGMLPSP ALRGPGPSGG
60 70 80 90 100
MGVPGAAAFR PMGPAGPAAQ YQRPGMSPGS RMPMAGLQVG PPAGSPFGTA
110 120 130 140 150
APLRPGMPPT MMDPFRKRLL VPQAQPPMPA QRRGLKRRKM ADKVLPQRIR
160 170 180 190 200
ELVPESQAYM DLLAFERKLD QTIARKRMEI QEAIKKPLTQ KRKLRIYISN
210 220 230 240 250
TFSPSKADGD NAGTAGTPGG TPAADKVASW ELRVEGKLLD DPSKQKRKFS
260 270 280 290 300
SFFKSLVIEL DKELYGPDNH LVEWHRMPTT QETDGFQVKR PGDLNVKCTL
310 320 330 340 350
LLMLDHQPPQ YKLDPRLARL LGVHTQTRAA IMQALWLYIK HNQLQDGHER
360 370 380 390 400
EYINCNRYFR QIFSCGRLRF SEIPMKLAGL LQHPDPIVIN HVISVDPNDQ
410 420 430 440 450
KKTACYDIDV EVDDPLKAQM SNFLASTTNQ QEIASLDVKI HETIESINQL
460 470 480 490 500
KTQRDFMLSF STEPQDFIQE WLRSQRRDLK IITDVIGNPE EERRAAFYHQ
510 520 530
PWAQEAVGRH IFAKVQQRRQ ELEQVLGIRL T
Length:531
Mass (Da):59,085
Last modified:February 8, 2011 - v2
Checksum:iB6C9D8CDC88477B5
GO
Isoform 2 (identifier: Q99JR8-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-71: MSGRGAGGFP...MGPAGPAAQY → MEGMGYGPRRAPPLTCVPPLFHFP

Show »
Length:484
Mass (Da):55,374
Checksum:i4A7D591EE5E40506
GO

Sequence cautioni

The sequence AAH05732 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0405331 – 71MSGRG…PAAQY → MEGMGYGPRRAPPLTCVPPL FHFP in isoform 2. 1 PublicationAdd BLAST71

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL604045 Genomic DNA. Translation: CAM23787.1.
AL604045 Genomic DNA. Translation: CAM23791.1.
BC005732 mRNA. Translation: AAH05732.1. Different initiation.
CCDSiCCDS48957.1. [Q99JR8-2]
CCDS48958.1. [Q99JR8-1]
RefSeqiNP_001123659.1. NM_001130187.1. [Q99JR8-1]
UniGeneiMm.21772.

Genome annotation databases

EnsembliENSMUST00000021052; ENSMUSP00000021052; ENSMUSG00000078619. [Q99JR8-1]
ENSMUST00000106843; ENSMUSP00000102456; ENSMUSG00000078619. [Q99JR8-2]
GeneIDi83796.
KEGGimmu:83796.
UCSCiuc007lyo.2. mouse. [Q99JR8-2]
uc007lyp.2. mouse. [Q99JR8-1]

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Entry informationi

Entry nameiSMRD2_MOUSE
AccessioniPrimary (citable) accession number: Q99JR8
Secondary accession number(s): B1ARI7, B1ARJ6
Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 4, 2005
Last sequence update: February 8, 2011
Last modified: November 22, 2017
This is version 121 of the entry and version 2 of the sequence. See 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