TF Info Page for MBD2 (MBD)

Conclusion

Assessment Binding Mode Motif Status Notes Comments
Known motif 3 Low specificity DNA-binding protein In vivo/Misc source Only known motifs are from Transfac or HocoMoco - origin is uncertain; Has a putative AT-hook

Description

Description: methyl-CpG binding domain protein 2 [Source:HGNC Symbol;Acc:HGNC:6917]
Entrez Summary DNA methylation is the major modification of eukaryotic genomes and plays an essential role in mammalian development. Human proteins MECP2, MBD1, MBD2, MBD3, and MBD4 comprise a family of nuclear proteins related by the presence in each of a methyl-CpG binding domain (MBD). Each of these proteins, with the exception of MBD3, is capable of binding specifically to methylated DNA. MECP2, MBD1 and MBD2 can also repress transcription from methylated gene promoters. The protein encoded by this gene may function as a mediator of the biological consequences of the methylation signal. It is also reported that the this protein functions as a demethylase to activate transcription, as DNA methylation causes gene silencing. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Feb 2011]
Ensembl ID: ENSG00000134046
External Link: CisBP
Interpro IPR001739; IPR016177; IPR025884; ;
Protein Domain: ENSP00000256429
Protein Domain: ENSP00000464554
Protein Domain: ENSP00000381435
Domain:
Protein: ENSP00000256429DBD: Methyl-CpG DNA-bindingOther: MBD_C
Protein: ENSP00000464554DBD: Methyl-CpG DNA-bindingOther:
Protein: ENSP00000381435DBD: Methyl-CpG DNA-bindingOther:

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_Transcription Regulatory Activity
heterochromatin interaction/binding
DNA-Binding
non-sequence-specific_Non-specific DNA
Other_
PMIDS:10471499 14610093
Vaquerizas 2009 TF classification
"a" Has direct evidence of TF function;
"b" Has evidence for an orthologous TF;
"c" contains likely DBDs, but has no functional evidence;
"x" is an unlikely TF such as predicted gene, genes with likely non-specific DBDs or that have function outside transcription;
"other" category contains proteins without clear DBDs they curated from external sources.
x
CisBP considers it as a TF? Yes
TFclass considers it as a TF? No
Has GO:0003700 "transcription factor activity, sequence-specific DNA binding" No
GO-Info
Initial Assessment
1a1 Protein has a high confidence PWM (HT-SELEX, PBM or B1H model) or there is a crystal structure that supports sequence specific DNA binding;
1a2 There is high confidence data for a close ortholog (as defined in CisBP);
2a1 There is lower confidence direct evidence, such as a Jaspar, Hocomoco or Transfac model;
2a2 There is lower confidence evidence for an close ortholog;
3a There is decent circumstantial evidence for its role as a TF or not;
4a Two or more datasets predict it as a TF;
5a One of the source datasets predicts is as a TF
1a1, Direct HQ evidence
TF has conditional DNA-binding requirements

DNA-Binding

Published Motif Data

Source Annotation Motif Evidence
MiscHocoMocoDirect

Structure

Structure PDB 2KY8

Experimental History

Method Constructs
Tried in PBM?
(Whether the protein was tried in PBM or not)
Tried in HT-SELEX
(Whether the protein was tried in HT-SELEX or not, and if so, then what kind of clones were tested)
Other Information?
(Tried with another method and failed?)

External Contribution