Protein: Methyl-CpG-binding domain protein 3 (Methyl-CpG-binding protein MBD3) (O95983)
Organism: Homo sapiens (Human)
Function: Acts as a component of the histone deacetylase NuRD complex which participates in the remodeling of chromatin. Acts as transcriptional repressor and plays a role in gene silencing. Does not bind to methylated DNA by itself. Binds to a lesser degree DNA containing unmethylated CpG dinucleotides. Recruits histone deacetylases and DNA methyltransferases.
Subcellular location: Nucleus {ECO:0000269|PubMed:15701600, ECO:0000269|PubMed:16428440, ECO:0000269|PubMed:20523938, ECO:0000269|PubMed:28977666, ECO:0000269|PubMed:33283408}. Chromosome {ECO:0000269|PubMed:27732854}. Note=Nuclear, in discrete foci. Detected on chromatin, at promoter regions of active genes. {ECO:0000269|PubMed:27732854}.
Sequence: MERKRWECPALPQGWEREEVPRRSGLSAGHRDVFYYSPSGKKFRSKPQLARYLGGSMDLSTFDFRTGKMLMSKMNKSRQRVRYDSSNQVKGKPDLNTALPVRQTASIFKQPVTKITNHPSNKVKSDPQKAVDQPRQLFWEKKLSGLNAFDIAEELVKTMDLPKGLQGVGPGCTDETLLSAIASALHTSTMPITGQLSAAVEKNPGVWLNTTQPLCKAFMVTDEDIRKQEELVQQVRKRLEEALMADMLAHVEELARDGEAPLDKACAEDDDEEDEEEEEEEPDPDPEMEHV
InterPro domains: - IPR032343: Methyl-CpG-binding domain protein 2/3, p55-binding region (domain) [79-148]
- IPR025884: Methyl-CpG binding protein 2/3, C-terminal domain (domain) [153-243]
- IPR016177: DNA-binding domain superfamily (homologous_superfamily) [6-96]
- IPR001739: Methyl-CpG DNA binding (domain) [1-76]
Interaction partners: - Histone deacetylase 1
- Metastasis-associated protein MTA2
- Histone-binding protein RBBP7
- Chromodomain-helicase-DNA-binding protein 4
- Metastasis-associated protein MTA1
- Histone-binding protein RBBP4
- Metastasis-associated protein MTA3
- Histone deacetylase 2
- Transcriptional repressor p66-alpha
- Chromodomain-helicase-DNA-binding protein 3
Gene Ontology annotations:
Molecular Function (MF): GO:0003674 (molecular function), GO:0005488 (binding), GO:0140110 (transcription regulator activity), GO:0036094 (small molecule binding), GO:1901363 (heterocyclic compound binding), GO:0003682 (chromatin binding), GO:0097159 (organic cyclic compound binding), GO:0003712 (transcription coregulator activity), GO:0005515 (protein binding), GO:0003676 (nucleic acid binding), GO:0003714 (transcription corepressor activity), GO:1901265 (nucleoside phosphate binding), GO:0000166 (nucleotide binding), GO:0019904 (protein domain specific binding), GO:0003677 (DNA binding), GO:0003723 (RNA binding), GO:0008327 (methyl-CpG binding), GO:0003690 (double-stranded DNA binding), GO:0043565 (sequence-specific DNA binding), GO:1990837 (sequence-specific double-stranded DNA binding)
Biological Process (BP): GO:0008150 (biological process), GO:0008152 (metabolic process), GO:0065007 (biological regulation), GO:0050789 (regulation of biological process), GO:0009987 (cellular process), GO:0048519 (negative regulation of biological process), GO:0019222 (regulation of metabolic process), GO:0006807 (nitrogen compound metabolic process), GO:0050794 (regulation of cellular process), GO:0071840 (cellular component organization or biogenesis), GO:0071704 (organic substance metabolic process), GO:0048523 (negative regulation of cellular process), GO:0044238 (primary metabolic process), GO:0009892 (negative regulation of metabolic process), GO:0051172 (negative regulation of nitrogen compound metabolic process), GO:1901564 (organonitrogen compound metabolic process), GO:0010605 (negative regulation of macromolecule metabolic process), GO:0019538 (protein metabolic process), GO:0009889 (regulation of biosynthetic process), GO:0051171 (regulation of nitrogen compound metabolic process), GO:0060255 (regulation of macromolecule metabolic process), GO:0016043 (cellular component organization), GO:0031323 (regulation of cellular metabolic process), GO:0009890 (negative regulation of biosynthetic process), GO:0080090 (regulation of primary metabolic process), GO:0031324 (negative regulation of cellular metabolic process), GO:0043170 (macromolecule metabolic process), GO:0036211 (protein modification process), GO:0043412 (macromolecule modification), GO:0010556 (regulation of macromolecule biosynthetic process), GO:0031326 (regulation of cellular biosynthetic process), GO:0006325 (chromatin organization), GO:0019219 (regulation of nucleobase-containing compound metabolic process), GO:0010558 (negative regulation of macromolecule biosynthetic process), GO:0031327 (negative regulation of cellular biosynthetic process), GO:0051252 (regulation of RNA metabolic process), GO:0051253 (negative regulation of RNA metabolic process), GO:0045934 (negative regulation of nucleobase-containing compound metabolic process), GO:0010629 (negative regulation of gene expression), GO:0010468 (regulation of gene expression), GO:0040029 (epigenetic regulation of gene expression), GO:0006338 (chromatin remodeling), GO:0045814 (negative regulation of gene expression, epigenetic), GO:0098732 (macromolecule deacylation), GO:2001141 (regulation of RNA biosynthetic process), GO:1902679 (negative regulation of RNA biosynthetic process), GO:0006355 (regulation of DNA-templated transcription), GO:0016570 (histone modification), GO:0035601 (protein deacylation), GO:0006357 (regulation of transcription by RNA polymerase II), GO:1903507 (negative regulation of nucleic acid-templated transcription), GO:0031507 (heterochromatin formation), GO:1903506 (regulation of nucleic acid-templated transcription), GO:0016575 (histone deacetylation), GO:0006476 (protein deacetylation), GO:0045892 (negative regulation of DNA-templated transcription), GO:0070828 (heterochromatin organization), GO:0140718 (facultative heterochromatin formation), GO:0000122 (negative regulation of transcription by RNA polymerase II), GO:0006346 (DNA methylation-dependent heterochromatin formation)
Cellular Component (CC): GO:0005575 (cellular component), GO:0032991 (protein-containing complex), GO:0110165 (cellular anatomical entity), GO:0005622 (intracellular anatomical structure), GO:0043226 (organelle), GO:0000785 (chromatin), GO:0005829 (cytosol), GO:1902494 (catalytic complex), GO:0140513 (nuclear protein-containing complex), GO:0005737 (cytoplasm), GO:0005667 (transcription regulator complex), GO:0031974 (membrane-enclosed lumen), GO:0005654 (nucleoplasm), GO:0070603 (SWI/SNF superfamily-type complex), GO:0000118 (histone deacetylase complex), GO:0043229 (intracellular organelle), GO:0016581 (NuRD complex), GO:0043228 (non-membrane-bounded organelle), GO:0043233 (organelle lumen), GO:1904949 (ATPase complex), GO:0043227 (membrane-bounded organelle), GO:0043231 (intracellular membrane-bounded organelle), GO:0090545 (CHD-type complex), GO:0043232 (intracellular non-membrane-bounded organelle), GO:0070013 (intracellular organelle lumen), GO:0005634 (nucleus), GO:0031981 (nuclear lumen), GO:0005694 (chromosome)