Methyl-CpG-binding domain protein 3

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Binary interactions

Alternative products

Sequence annotation (Features)

Sequences

References

Cross-references

Entry information

Relevant documents

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Binary interactions

Alternative products

Sequence annotation (Features)

Sequences

References

Cross-references

Entry information

Relevant documents

Molecule processing

Regions

Amino acid modifications

Natural variations

Preferred order of sections

With

Entry

#Exp.

IntAct

Notes

Molecule processing

Regions

Amino acid modifications

Natural variations

Sequence databases

3D structure databases

Protein-protein interaction databases

PTM databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Gene expression databases

Family and domain databases

Other

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Q9Z2D8 (MBD3_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Last modified November 16, 2011. Version 83. History...

Clusters with 100%, 90%, 50% identity |

Documents (2) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Interactions·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Protein names

Recommended name:
Methyl-CpG-binding domain protein 3

Alternative name(s):
Methyl-CpG-binding protein MBD3

Gene names

Name:

Mbd3

Organism

Mus musculus (Mouse)

Taxonomic identifier

10090 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Mus › Mus

Sequence length	285 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

Function	Does not bind DNA by itself. Recruits histone deacetylases and DNA methyltransferases. Acts as transcriptional repressor and plays a role in gene silencing. Ref.1
Subunit structure	Heterodimer with MBD2. Part of the NuRD and the MeCP1 complex. Binds HDAC1, MTA2, DNMT1, p66-alpha and p66-beta By similarity.
Subcellular location	Nucleus. Note: Nuclear, in discrete foci. Ref.1 Ref.4
Tissue specificity	Highly expressed in brain, heart, kidney, liver, lung, skeletal muscle, spleen and testis. Detected at lower levels in embryonic stem cells. Ref.1
Sequence similarities	Contains 1 MBD (methyl-CpG-binding) domain.

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Nucleus
Coding sequence diversity	Alternative splicing
Domain	Coiled coil
PTM	Acetylation Phosphoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	histone acetylation Inferred from mutant phenotype. Source: MGI in utero embryonic development Inferred from mutant phenotype. Source: MGI methylation-dependent chromatin silencing Inferred from direct assay. Source: MGI negative regulation of transcription from RNA polymerase II promoter Inferred from direct assay. Source: MGI tissue development Inferred from mutant phenotype. Source: MGI transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	NuRD complex Inferred from physical interaction. Source: MGI cytoplasm Inferred from direct assay. Source: MGI heterochromatin Inferred from direct assay. Source: MGI
Molecular function	DNA binding Inferred from direct assay Ref.1. Source: MGI chromatin binding Inferred from direct assay. Source: MGI protein binding Inferred from physical interaction. Source: IntAct
Complete GO annotation...

With	Entry	#Exp.	IntAct	Notes
Mecom	P14404	4	EBI-1994548,EBI-1994523

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Chain

1 – 285

285

Methyl-CpG-binding domain protein 3

PRO_0000096263

Domain

1 – 69

MBD

Coiled coil

221 – 279

Potential

Compositional bias

229 – 283

Glu-rich

Modified residue

N6-acetyllysine By similarity

Modified residue

Phosphoserine By similarity

Modified residue

109

N6-acetyllysine By similarity

Modified residue

141

N6-acetyllysine By similarity

Modified residue

144

Phosphoserine By similarity

Alternative sequence

5 – 36

Missing in isoform 2.

VSP_011082

Sequence		Length	Mass (Da)
Isoform 1 [UniParc]. Last modified May 1, 1999. Version 1. Checksum: E4E57BD48463643F Show »	FASTA	285	32,168
10 20 30 40 50 60 MERKRWECPA LPQGWEREEV PRRSGLSAGH RDVFYYSPSG KKFRSKPQLA RYLGGSMDLS 70 80 90 100 110 120 TFDFRTGKML MNKMNKSRQR VRYDSSNQVK GKPDLNTALP VRQTASIFKQ PVTKITNHPS 130 140 150 160 170 180 NKVKSDPQKA VDQPRQLFWE KKLSGLSAFD IAEELVRTMD LPKGLQGVGP GCTDETLLSA 190 200 210 220 230 240 IASALHTSTL PITGQLSAAV EKNPGVWLNT AQPLCKAFMV TDDDIRKQEE LVQQVRKRLE 250 260 270 280 EALMADMLAH VEELARDGEA PLDKACAEEE EEEEEEEEEP EPERV « Hide
Isoform 2 [UniParc]. Checksum: AD85860066812B03 Show »	FASTA	253	28,338
10 20 30 40 50 60 MERKSPSGKK FRSKPQLARY LGGSMDLSTF DFRTGKMLMN KMNKSRQRVR YDSSNQVKGK 70 80 90 100 110 120 PDLNTALPVR QTASIFKQPV TKITNHPSNK VKSDPQKAVD QPRQLFWEKK LSGLSAFDIA 130 140 150 160 170 180 EELVRTMDLP KGLQGVGPGC TDETLLSAIA SALHTSTLPI TGQLSAAVEK NPGVWLNTAQ 190 200 210 220 230 240 PLCKAFMVTD DDIRKQEELV QQVRKRLEEA LMADMLAHVE ELARDGEAPL DKACAEEEEE 250 EEEEEEEPEP ERV « Hide

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Identification and characterization of a family of mammalian methyl-CpG binding proteins." Hendrich B., Bird A. Mol. Cell. Biol. 18:6538-6547(1998) [PubMed: 9774669] [Abstract] Cited for: NUCLEOTIDE SEQUENCE (ISOFORM 1), FUNCTION, TISSUE SPECIFICITY, SUBCELLULAR LOCATION.
[2]	"Genomic structure and chromosomal mapping of the murine and human mbd1, mbd2, mbd3, and mbd4 genes." Hendrich B., Abbott C., McQueen H., Chambers D., Cross S.H., Bird A. Mamm. Genome 10:906-912(1999) [PubMed: 10441743] [Abstract] Cited for: NUCLEOTIDE SEQUENCE. Strain: 129.
[3]	"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: 15489334] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2). Strain: C57BL/6J. Tissue: Mammary tumor.
[4]	"Role of human ribosomal RNA (rRNA) promoter methylation and of methyl-CpG-binding protein MBD2 in the suppression of rRNA gene expression." Ghoshal K., Majumder S., Datta J., Motiwala T., Bai S., Sharma S.M., Frankel W., Jacob S.T. J. Biol. Chem. 279:6783-6793(2004) [PubMed: 14610093] [Abstract] Cited for: SUBCELLULAR LOCATION.
+	Additional computationally mapped references.

Sequence databases
EMBL GenBank DDBJ	AF072248 mRNA. Translation: AAC68877.1. AF120995 Genomic DNA. Translation: AAD48909.1. BC038264 mRNA. Translation: AAH38264.1.
IPI	IPI00131067. IPI00466458.
RefSeq	NP_038623.1. NM_013595.2.
UniGene	Mm.7142.
3D structure databases
ProteinModelPortal	Q9Z2D8.
SMR	Q9Z2D8. Positions 2-69, 216-249.
ModBase	Search...
Protein-protein interaction databases
IntAct	Q9Z2D8. 6 interactions.
STRING	Q9Z2D8.
PTM databases
PhosphoSite	Q9Z2D8.
Proteomic databases
PRIDE	Q9Z2D8.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENSMUST00000092295; ENSMUSP00000089948; ENSMUSG00000035478. ENSMUST00000105349; ENSMUSP00000100986; ENSMUSG00000035478.
GeneID	17192.
KEGG	mmu:17192.
UCSC	uc007gda.1. mouse. uc007gdb.1. mouse.
Organism-specific databases
CTD	53615.
MGI	MGI:1333812. Mbd3.
Phylogenomic databases
eggNOG	roNOG12118.
GeneTree	ENSGT00410000025376.
HOGENOM	HBG315648.
HOVERGEN	HBG052417.
InParanoid	Q9Z2D8.
OMA	RQRMRYD.
OrthoDB	EOG4GF3FS.
Gene expression databases
ArrayExpress	Q9Z2D8.
Bgee	Q9Z2D8.
CleanEx	MM_MBD3.
Genevestigator	Q9Z2D8.
GermOnline	ENSMUSG00000035478. Mus musculus.
Family and domain databases
InterPro	IPR016177. DNA-bd_integrase-typ. IPR001739. Methyl_CpG_DNA-bd. [Graphical view]
Gene3D	G3DSA:3.30.890.10. Methyl_CpG_DNA-bd. 1 hit.
KO	K11591.
Pfam	PF01429. MBD. 1 hit. [Graphical view]
SMART	SM00391. MBD. 1 hit. [Graphical view]
SUPFAM	SSF54171. DNA-binding_integrase-type. 1 hit.
PROSITE	PS50982. MBD. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	291538.
SOURCE	Search...

Entry name

MBD3_MOUSE

Accession

Primary (citable) accession number: Q9Z2D8
Secondary accession number(s): Q792D3, Q8CFJ1

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 19, 2004
Last sequence update:	May 1, 1999
Last modified:	November 16, 2011
This is version 83 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program

MGD cross-references

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

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Interactions·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q9Z2D8-1)

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 2 (identifier: Q9Z2D8-2)

The sequence of this isoform differs from the canonical sequence as follows:
5-36: Missing.

Note: No experimental confirmation available.