CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-019279
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 1 
Protein Synonyms/Alias
 60 kDa BRG-1/Brm-associated factor subunit A; BRG1-associated factor 60A; BAF60A; SWI/SNF complex 60 kDa subunit 
Gene Name
 SMARCD1 
Gene Synonyms/Alias
 BAF60A 
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
156DLLAFERKLDQTIMRubiquitination[1]
173LDIQEALKRPIKQKRubiquitination[1]
194SNTFNPAKSDAEDGEubiquitination[1]
223LEDSALSKYDATKQKubiquitination[1, 2]
273ETDGFQVKRPGDVNVubiquitination[1]
341REFVICDKYLQQIFEubiquitination[1]
353IFESQRMKFSEIPQRubiquitination[1]
385SVDPNDQKKTACYDIubiquitination[1]
386VDPNDQKKTACYDIDubiquitination[1]
435IETINQLKTQREFMLubiquitination[1]
464QSQCRDLKTMTDVVGubiquitination[1, 3, 4]
498VCRYFYSKVQQRRQEubiquitination[1, 3]
Reference
 [1] Refined preparation and use of anti-diglycine remnant (K-ε-GG) antibody enables routine quantification of 10,000s of ubiquitination sites in single proteomics experiments.
 Udeshi ND, Svinkina T, Mertins P, Kuhn E, Mani DR, Qiao JW, Carr SA.
 Mol Cell Proteomics. 2013 Mar;12(3):825-31. [PMID: 23266961]
 [2] A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles.
 Wagner SA, Beli P, Weinert BT, Nielsen ML, Cox J, Mann M, Choudhary C.
 Mol Cell Proteomics. 2011 Oct;10(10):M111.013284. [PMID: 21890473]
 [3] Methods for quantification of in vivo changes in protein ubiquitination following proteasome and deubiquitinase inhibition.
 Udeshi ND, Mani DR, Eisenhaure T, Mertins P, Jaffe JD, Clauser KR, Hacohen N, Carr SA.
 Mol Cell Proteomics. 2012 May;11(5):148-59. [PMID: 22505724]
 [4] Systems-wide analysis of ubiquitylation dynamics reveals a key role for PAF15 ubiquitylation in DNA-damage bypass.
 Povlsen LK, Beli P, Wagner SA, Poulsen SL, Sylvestersen KB, Poulsen JW, Nielsen ML, Bekker-Jensen S, Mailand N, Choudhary C.
 Nat Cell Biol. 2012 Oct;14(10):1089-98. [PMID: 23000965] 
Functional Description
 Involved in chromatin remodeling. 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 (By similarity). Has a strong influence on the Vitamin D-mediated transcriptional activity from an enhancer Vitamin D receptor element (VDRE). May be a link between mammalian SWI-SNF-like chromatin remodeling complexes and the vitamin D receptor (VDR) heterodimer. Mediates critical interactions between nuclear receptors and the BRG1/SMARCA4 chromatin-remodeling complex for transactivation. 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. 
Sequence Annotation
 DOMAIN 291 390 SWIB.
 REGION 43 167 Interaction with ESR1, NR1H4, NR3C1, PGR
 REGION 168 474 Interaction with SMARCC1 and SMARCC2.
 REGION 180 515 Necessary for GR/NR3C1-mediated  
Keyword
 Alternative splicing; Chromatin regulator; Coiled coil; Complete proteome; Neurogenesis; Nucleus; Reference proteome. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 515 AA 
Protein Sequence
MAARAGFQSV APSGGAGASG GAGAAAALGP GGTPGPPVRM GPAPGQGLYR SPMPGAAYPR 60
PGMLPGSRMT PQGPSMGPPG YGGNPSVRPG LAQSGMDQSR KRPAPQQIQQ VQQQAVQNRN 120
HNAKKKKMAD KILPQRIREL VPESQAYMDL LAFERKLDQT IMRKRLDIQE ALKRPIKQKR 180
KLRIFISNTF NPAKSDAEDG EGTVASWELR VEGRLLEDSA LSKYDATKQK RKFSSFFKSL 240
VIELDKDLYG PDNHLVEWHR TATTQETDGF QVKRPGDVNV RCTVLLMLDY QPPQFKLDPR 300
LARLLGIHTQ TRPVIIQALW QYIKTHKLQD PHEREFVICD KYLQQIFESQ RMKFSEIPQR 360
LHALLMPPEP IIINHVISVD PNDQKKTACY DIDVEVDDTL KTQMNSFLLS TASQQEIATL 420
DNKIHETIET INQLKTQREF MLSFARDPQG FINDWLQSQC RDLKTMTDVV GNPEEERRAE 480
FYFQPWAQEA VCRYFYSKVQ QRRQELEQAL GIRNT 515 
Gene Ontology
 GO:0071565; C:nBAF complex; ISS:UniProtKB.
 GO:0071564; C:npBAF complex; ISS:UniProtKB.
 GO:0016514; C:SWI/SNF complex; IDA:UniProtKB.
 GO:0032947; F:protein complex scaffold; IDA:UniProtKB.
 GO:0003713; F:transcription coactivator activity; NAS:BHF-UCL.
 GO:0048096; P:chromatin-mediated maintenance of transcription; IMP:UniProtKB.
 GO:0007399; P:nervous system development; IEA:UniProtKB-KW.
 GO:0006337; P:nucleosome disassembly; IDA:BHF-UCL.
 GO:0006357; P:regulation of transcription from RNA polymerase II promoter; NAS:BHF-UCL. 
Interpro
 IPR019835; SWIB_domain.
 IPR003121; SWIB_MDM2_domain. 
Pfam
 PF02201; SWIB 
SMART
 SM00151; SWIB 
PROSITE
  
PRINTS