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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).By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Chromatin regulator

Keywords - Biological processi

Transcription, Transcription regulation

Enzyme and pathway databases

ReactomeiR-MMU-3214858. RMTs methylate histone arginines.

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 lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 11

Organism-specific databases

MGIiMGI:1933621. Smarcd2.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 531531SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 2PRO_0000071986Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei217 – 2171PhosphothreonineCombined sources

Post-translational modificationi

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

Keywords - PTMi

Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiQ99JR8.
MaxQBiQ99JR8.
PaxDbiQ99JR8.
PRIDEiQ99JR8.

PTM databases

iPTMnetiQ99JR8.
PhosphoSiteiQ99JR8.

Expressioni

Gene expression databases

BgeeiQ99JR8.
ExpressionAtlasiQ99JR8. baseline and differential.
GenevisibleiQ99JR8. MM.

Interactioni

Subunit structurei

Component of the BAF complex, which includes at least actin (ACTB), ARID1A, ARID1B/BAF250, SMARCA2, SMARCA4/BRG1, 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. May interact with SMARCA4, the catalytic subunit of the SWI/SNF related nucleosome-remodeling complexes BRG1(I) and BRG1(II). The precise distribution of the related SMARCD1, SMARCD2 and SMARCD3 proteins among these and other SWI/SNF nucleosome-remodeling complexes is not fully known (By similarity). Interacts with UNKL (By similarity).By similarity

Protein-protein interaction databases

BioGridi219976. 2 interactions.
DIPiDIP-58950N.
IntActiQ99JR8. 4 interactions.
MINTiMINT-4134926.
STRINGi10090.ENSMUSP00000021052.

Structurei

3D structure databases

ProteinModelPortaliQ99JR8.
SMRiQ99JR8. Positions 307-386.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini307 – 38276SWIBAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi10 – 129120Pro-richAdd
BLAST

Sequence similaritiesi

Belongs to the SMARCD family.Curated
Contains 1 SWIB domain.Curated

Phylogenomic databases

eggNOGiKOG2570. Eukaryota.
COG5531. LUCA.
GeneTreeiENSGT00390000017809.
HOGENOMiHOG000240746.
HOVERGENiHBG054046.
InParanoidiQ99JR8.
KOiK11650.
OMAiMRFSEIP.
OrthoDBiEOG7PZRXG.
PhylomeDBiQ99JR8.
TreeFamiTF106486.

Family and domain databases

Gene3Di1.10.245.10. 1 hit.
InterProiIPR030090. BAF60B.
IPR019835. SWIB_domain.
IPR003121. SWIB_MDM2_domain.
[Graphical view]
PANTHERiPTHR13844:SF2. PTHR13844:SF2. 1 hit.
PfamiPF02201. SWIB. 1 hit.
[Graphical view]
SMARTiSM00151. SWIB. 1 hit.
[Graphical view]
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 AAH05732.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 7171MSGRG…PAAQY → MEGMGYGPRRAPPLTCVPPL FHFP in isoform 2. 1 PublicationVSP_040533Add
BLAST

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

Cross-referencesi

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.

3D structure databases

ProteinModelPortaliQ99JR8.
SMRiQ99JR8. Positions 307-386.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi219976. 2 interactions.
DIPiDIP-58950N.
IntActiQ99JR8. 4 interactions.
MINTiMINT-4134926.
STRINGi10090.ENSMUSP00000021052.

PTM databases

iPTMnetiQ99JR8.
PhosphoSiteiQ99JR8.

Proteomic databases

EPDiQ99JR8.
MaxQBiQ99JR8.
PaxDbiQ99JR8.
PRIDEiQ99JR8.

Protocols and materials databases

DNASUi83796.
Structural Biology KnowledgebaseSearch...

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]

Organism-specific databases

CTDi6603.
MGIiMGI:1933621. Smarcd2.

Phylogenomic databases

eggNOGiKOG2570. Eukaryota.
COG5531. LUCA.
GeneTreeiENSGT00390000017809.
HOGENOMiHOG000240746.
HOVERGENiHBG054046.
InParanoidiQ99JR8.
KOiK11650.
OMAiMRFSEIP.
OrthoDBiEOG7PZRXG.
PhylomeDBiQ99JR8.
TreeFamiTF106486.

Enzyme and pathway databases

ReactomeiR-MMU-3214858. RMTs methylate histone arginines.

Miscellaneous databases

ChiTaRSiSmarcd2. mouse.
NextBioi350778.
PROiQ99JR8.
SOURCEiSearch...

Gene expression databases

BgeeiQ99JR8.
ExpressionAtlasiQ99JR8. baseline and differential.
GenevisibleiQ99JR8. MM.

Family and domain databases

Gene3Di1.10.245.10. 1 hit.
InterProiIPR030090. BAF60B.
IPR019835. SWIB_domain.
IPR003121. SWIB_MDM2_domain.
[Graphical view]
PANTHERiPTHR13844:SF2. PTHR13844:SF2. 1 hit.
PfamiPF02201. SWIB. 1 hit.
[Graphical view]
SMARTiSM00151. SWIB. 1 hit.
[Graphical view]
SUPFAMiSSF47592. SSF47592. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: C57BL/6J.
  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 2).
    Strain: FVB/N.
    Tissue: Mammary tumor.
  3. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-217, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Kidney, Liver, Spleen and Testis.

Entry informationi

Entry nameiSMRD2_MOUSE
AccessioniPrimary (citable) accession number: Q99JR8
Secondary accession number(s): B1ARI7, B1ARJ6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 4, 2005
Last sequence update: February 8, 2011
Last modified: May 11, 2016
This is version 107 of the entry and version 2 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

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 one 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.