The Human Transcription Factors

Conclusion

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

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

Domain:

Protein: ENSP00000339546	DBD: Methyl-CpG DNA-binding	Other:
Protein: ENSP00000285102	DBD: Methyl-CpG DNA-binding	Other:
Protein: ENSP00000269469	DBD: Methyl-CpG DNA-binding	Other:
Protein: ENSP00000381502	DBD: Methyl-CpG DNA-binding	Other:
Protein: ENSP00000466092	DBD: Methyl-CpG DNA-binding	Other:
Protein: ENSP00000467763	DBD: Methyl-CpG DNA-binding	Other:
Protein: ENSP00000468785	DBD: Methyl-CpG DNA-binding	Other:
Protein: ENSP00000465923	DBD: Methyl-CpG DNA-binding	Other:
Protein: ENSP00000467606	DBD: Methyl-CpG DNA-binding	Other:
Protein: ENSP00000372407	DBD: Methyl-CpG DNA-binding	Other:
Protein: ENSP00000405268	DBD: Methyl-CpG DNA-binding	Other:
Protein: ENSP00000468430	DBD: Methyl-CpG DNA-binding	Other:
Protein: ENSP00000468042	DBD: Methyl-CpG DNA-binding	Other:
Protein: ENSP00000466429	DBD: Methyl-CpG DNA-binding	Other:
Protein: ENSP00000466806	DBD: Methyl-CpG DNA-binding	Other:

Previous Annotations

Source	Annotation
TF-CAT classification	TF Gene_Transcription Regulatory Activity heterochromatin interaction/binding DNA-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.	x
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
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

Structure

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

Name
Email
Comment
Reference

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TF Info Page for MBD1 (MBD; CxxC ZF)

Conclusion

Description

Previous Annotations

DNA-Binding

Published Motif Data

Structure

Experimental History

External Contribution