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Protein

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

Gene

SMARCD2

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 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).

GO - Molecular functioni

  • transcription coactivator activity Source: UniProtKB

GO - Biological processi

  • ATP-dependent chromatin remodeling Source: UniProtKB
  • chromatin modification Source: UniProtKB-KW
  • chromatin remodeling Source: BHF-UCL
  • nucleosome disassembly Source: BHF-UCL
  • regulation of transcription from RNA polymerase II promoter Source: UniProtKB
  • transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Chromatin regulator

Keywords - Biological processi

Transcription, Transcription regulation

Enzyme and pathway databases

BioCyciZFISH:ENSG00000108604-MONOMER.
ReactomeiR-HSA-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
ORF Names:PRO2451
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 17

Organism-specific databases

HGNCiHGNC:11107. SMARCD2.

Subcellular locationi

GO - Cellular componenti

  • nuclear chromatin Source: UniProtKB
  • nucleoplasm Source: HPA
  • protein complex Source: UniProtKB
  • SWI/SNF complex Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

OpenTargetsiENSG00000108604.
PharmGKBiPA35957.

Polymorphism and mutation databases

BioMutaiSMARCD2.
DMDMi322510105.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000719851 – 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 dimethylarginineCombined sources1
Modified residuei104Asymmetric dimethylarginineCombined sources1
Modified residuei203PhosphoserineCombined sources1
Modified residuei217PhosphothreonineCombined sources1

Post-translational modificationi

Ubiquitinated through a signaling process involving RAC1 and the RING finger protein UNKL.1 Publication

Keywords - PTMi

Methylation, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiQ92925.
MaxQBiQ92925.
PaxDbiQ92925.
PeptideAtlasiQ92925.
PRIDEiQ92925.

PTM databases

iPTMnetiQ92925.
PhosphoSitePlusiQ92925.

Expressioni

Tissue specificityi

Isoform 2 is expressed in the pancreas.1 Publication

Gene expression databases

BgeeiENSG00000108604.
CleanExiHS_SMARCD2.
ExpressionAtlasiQ92925. baseline and differential.
GenevisibleiQ92925. HS.

Organism-specific databases

HPAiHPA059934.
HPA061348.

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. Interacts with UNKL.2 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
UNKLQ9H9P52EBI-358441,EBI-7797561

Protein-protein interaction databases

BioGridi112487. 51 interactors.
DIPiDIP-31182N.
IntActiQ92925. 18 interactors.
MINTiMINT-1138034.
STRINGi9606.ENSP00000392617.

Structurei

3D structure databases

ProteinModelPortaliQ92925.
SMRiQ92925.
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
Contains 1 SWIB domain.Curated

Phylogenomic databases

eggNOGiKOG2570. Eukaryota.
COG5531. LUCA.
GeneTreeiENSGT00390000017809.
HOVERGENiHBG054046.
InParanoidiQ92925.
KOiK11650.
OMAiMRFSEIP.
OrthoDBiEOG091G06WW.
PhylomeDBiQ92925.
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 (3)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q92925-1) [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 PAGPGMLPGP ALRGPGPAGG
60 70 80 90 100
VGGPGAAAFR PMGPAGPAAQ YQRPGMSPGN RMPMAGLQVG PPAGSPFGAA
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
TFSPSKAEGD SAGTAGTPGG TPAGDKVASW 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 STDPQDFIQE WLRSQRRDLK IITDVIGNPE EERRAAFYHQ
510 520 530
PWAQEAVGRH IFAKVQQRRQ ELEQVLGIRL T
Note: No experimental confirmation available.
Length:531
Mass (Da):58,921
Last modified:February 8, 2011 - v3
Checksum:i8C92168AE7782814
GO
Isoform 2 (identifier: Q92925-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     48-68: Missing.
     86-123: GLQVGPPAGS...PFRKRLLVPQ → RLAGGTPCWL...SIPKTPACAP

Note: Produced by aberrant splicing sites.
Show »
Length:510
Mass (Da):57,244
Checksum:iB44CF9CA48DB6065
GO
Isoform 3 (identifier: Q92925-3) [UniParc]FASTAAdd to basket

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

Show »
Length:483
Mass (Da):55,239
Checksum:iF81547E527C34871
GO

Sequence cautioni

The sequence AAC50696 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated
The sequence AAF20280 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti11L → V in AAC50696 (PubMed:8804307).Curated1
Sequence conflicti28P → Q in AAI42964 (PubMed:15489334).Curated1
Sequence conflicti269N → G in AAC50696 (PubMed:8804307).Curated1
Sequence conflicti275 – 276HR → YW in AAC50696 (PubMed:8804307).Curated2
Sequence conflicti332M → T in AAI42964 (PubMed:15489334).Curated1
Sequence conflicti369R → S in AAI42964 (PubMed:15489334).Curated1
Sequence conflicti372E → K in AAI42964 (PubMed:15489334).Curated1
Sequence conflicti486I → T in AAC50696 (PubMed:8804307).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0405301 – 71MSGRG…PAAQY → MGRRVGVEVTPRWAPQKCQG ARP in isoform 3. 1 PublicationAdd BLAST71
Alternative sequenceiVSP_04053148 – 68Missing in isoform 2. 1 PublicationAdd BLAST21
Alternative sequenceiVSP_04053286 – 123GLQVG…LLVPQ → RLAGGTPCWLPIWCSSSAST WHPTHHDGSIPKTPACAP in isoform 2. 1 PublicationAdd BLAST38

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U66618 mRNA. Translation: AAC50696.1. Different initiation.
AK300939 mRNA. Translation: BAG62568.1.
AK303951 mRNA. Translation: BAG64878.1.
AC015651 Genomic DNA. No translation available.
CH471109 Genomic DNA. Translation: EAW94267.1.
BC018953 mRNA. Translation: AAH18953.2.
BC142963 mRNA. Translation: AAI42964.1.
AF113019 mRNA. Translation: AAF20280.1. Different initiation.
CCDSiCCDS45756.1. [Q92925-1]
CCDS82188.1. [Q92925-3]
RefSeqiNP_001091896.1. NM_001098426.1. [Q92925-1]
NP_001317369.1. NM_001330440.1.
UniGeneiHs.250581.

Genome annotation databases

EnsembliENST00000323347; ENSP00000318451; ENSG00000108604. [Q92925-3]
ENST00000448276; ENSP00000392617; ENSG00000108604. [Q92925-1]
GeneIDi6603.
KEGGihsa:6603.
UCSCiuc010deb.2. human. [Q92925-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U66618 mRNA. Translation: AAC50696.1. Different initiation.
AK300939 mRNA. Translation: BAG62568.1.
AK303951 mRNA. Translation: BAG64878.1.
AC015651 Genomic DNA. No translation available.
CH471109 Genomic DNA. Translation: EAW94267.1.
BC018953 mRNA. Translation: AAH18953.2.
BC142963 mRNA. Translation: AAI42964.1.
AF113019 mRNA. Translation: AAF20280.1. Different initiation.
CCDSiCCDS45756.1. [Q92925-1]
CCDS82188.1. [Q92925-3]
RefSeqiNP_001091896.1. NM_001098426.1. [Q92925-1]
NP_001317369.1. NM_001330440.1.
UniGeneiHs.250581.

3D structure databases

ProteinModelPortaliQ92925.
SMRiQ92925.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi112487. 51 interactors.
DIPiDIP-31182N.
IntActiQ92925. 18 interactors.
MINTiMINT-1138034.
STRINGi9606.ENSP00000392617.

PTM databases

iPTMnetiQ92925.
PhosphoSitePlusiQ92925.

Polymorphism and mutation databases

BioMutaiSMARCD2.
DMDMi322510105.

Proteomic databases

EPDiQ92925.
MaxQBiQ92925.
PaxDbiQ92925.
PeptideAtlasiQ92925.
PRIDEiQ92925.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000323347; ENSP00000318451; ENSG00000108604. [Q92925-3]
ENST00000448276; ENSP00000392617; ENSG00000108604. [Q92925-1]
GeneIDi6603.
KEGGihsa:6603.
UCSCiuc010deb.2. human. [Q92925-1]

Organism-specific databases

CTDi6603.
GeneCardsiSMARCD2.
H-InvDBHIX0014075.
HGNCiHGNC:11107. SMARCD2.
HPAiHPA059934.
HPA061348.
MIMi601736. gene.
neXtProtiNX_Q92925.
OpenTargetsiENSG00000108604.
PharmGKBiPA35957.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG2570. Eukaryota.
COG5531. LUCA.
GeneTreeiENSGT00390000017809.
HOVERGENiHBG054046.
InParanoidiQ92925.
KOiK11650.
OMAiMRFSEIP.
OrthoDBiEOG091G06WW.
PhylomeDBiQ92925.
TreeFamiTF106486.

Enzyme and pathway databases

BioCyciZFISH:ENSG00000108604-MONOMER.
ReactomeiR-HSA-3214858. RMTs methylate histone arginines.

Miscellaneous databases

ChiTaRSiSMARCD2. human.
GeneWikiiSMARCD2.
GenomeRNAii6603.
PROiQ92925.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000108604.
CleanExiHS_SMARCD2.
ExpressionAtlasiQ92925. baseline and differential.
GenevisibleiQ92925. HS.

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...

Entry informationi

Entry nameiSMRD2_HUMAN
AccessioniPrimary (citable) accession number: Q92925
Secondary accession number(s): A5PLL5
, A6NNQ7, B4DV56, B4E1R6, Q7L2I6, Q9UHZ1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 4, 2005
Last sequence update: February 8, 2011
Last modified: November 30, 2016
This is version 139 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 17
    Human chromosome 17: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. 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.