TF Info Page for MBD1 (MBD; CxxC ZF)


Assessment Binding Mode Motif Status Notes Comments
Likely to be sequence specific TF 3 Low specificity DNA-binding protein No motif Binds CpG methylated DNA (PDB: 1IG4). It is unclear how much other specificity has been defined.


Description: methyl-CpG binding domain protein 1 [Source:HGNC Symbol;Acc:HGNC:6916]
Entrez Summary The protein encoded by this gene is a member of a family of nuclear proteins related by the presence of a methyl-CpG binding domain (MBD). These proteins are capable of binding specifically to methylated DNA, and some members can also repress transcription from methylated gene promoters. This protein contains multiple domains: MBD at the N-terminus that functions both in binding to methylated DNA and in protein interactions; several CXXC-type zinc finger domains that mediate binding to non-methylated CpG dinucleotides; transcriptional repression domain (TRD) at the C-terminus that is involved in transcription repression and in protein interactions. Numerous alternatively spliced transcript variants encoding different isoforms have been noted for this gene.[provided by RefSeq, Feb 2011]
Ensembl ID: ENSG00000141644
External Link: CisBP
Interpro IPR001739; IPR002857; IPR016177; ;
Protein Domain: ENSP00000339546
Protein Domain: ENSP00000285102
Protein Domain: ENSP00000269469
Protein Domain: ENSP00000381502
Protein Domain: ENSP00000466092
Protein Domain: ENSP00000467763
Protein Domain: ENSP00000468785
Protein Domain: ENSP00000465923
Protein Domain: ENSP00000467606
Protein Domain: ENSP00000372407
Protein Domain: ENSP00000405268
Protein Domain: ENSP00000468430
Protein Domain: ENSP00000468042
Protein Domain: ENSP00000466429
Protein Domain: ENSP00000466806
Protein: ENSP00000339546DBD: Methyl-CpG DNA-bindingOther:
Protein: ENSP00000285102DBD: Methyl-CpG DNA-bindingOther:
Protein: ENSP00000269469DBD: Methyl-CpG DNA-bindingOther:
Protein: ENSP00000381502DBD: Methyl-CpG DNA-bindingOther:
Protein: ENSP00000466092DBD: Methyl-CpG DNA-bindingOther:
Protein: ENSP00000467763DBD: Methyl-CpG DNA-bindingOther:
Protein: ENSP00000468785DBD: Methyl-CpG DNA-bindingOther:
Protein: ENSP00000465923DBD: Methyl-CpG DNA-bindingOther:
Protein: ENSP00000467606DBD: Methyl-CpG DNA-bindingOther:
Protein: ENSP00000372407DBD: Methyl-CpG DNA-bindingOther:
Protein: ENSP00000405268DBD: Methyl-CpG DNA-bindingOther:
Protein: ENSP00000468430DBD: Methyl-CpG DNA-bindingOther:
Protein: ENSP00000468042DBD: Methyl-CpG DNA-bindingOther:
Protein: ENSP00000466429DBD: Methyl-CpG DNA-bindingOther:
Protein: ENSP00000466806DBD: Methyl-CpG DNA-bindingOther:

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_Transcription Regulatory Activity
heterochromatin interaction/binding
non-sequence-specific_DNA Binding_
PMIDS:15060159 15691849
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.
CisBP considers it as a TF? Yes
TFclass considers it as a TF? Yes
Has GO:0003700 "transcription factor activity, sequence-specific DNA binding" No
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


Published Motif Data

Source Annotation Motif Evidence


Structure PDB 1IG4

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