TF Info Page for MYOD1 (bHLH)

Conclusion

Assessment Binding Mode Motif Status Notes Comments
Known motif 1 Monomer or homomultimer High-throughput in vitro

Description

Description: myogenic differentiation 1 [Source:HGNC Symbol;Acc:HGNC:7611]
Entrez Summary NA
Ensembl ID: ENSG00000129152
External Link: CisBP
Interpro IPR002546; IPR011598; IPR022032; ;
Protein Domain: ENSP00000250003
Domain:
Protein: ENSP00000250003DBD: bHLHOther: Basic, Myf5

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_DNA-Binding
sequence-specific_DNA Binding_
PMIDS:12242286
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.
a
CisBP considers it as a TF? Yes
TFclass considers it as a TF? Yes
Has GO:0003700 "transcription factor activity, sequence-specific DNA binding" Yes
GO-Info GO:0001228
RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor
IDA - PMID:11076940
GO:0003705
RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity
TAS - PMID:1846704
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
HT-SELEXYin2017Direct
HT-SELEXYin2017Direct
HT-SELEXYin2017Direct
HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
MiscHocoMocoDirect
ChIP-seqJASPARInferred - Myod1 (100% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - MYF5 (90% AA Identity, Homo sapiens)
MiscHOMERInferred - Myf5 (90% AA Identity, Mus musculus)
HT-SELEXNitta2015Inferred - nau (88% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - nau (88% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - nau (88% AA Identity, Drosophila melanogaster)
SMiLE-seqIsakova2017Inferred - MYF6 (80% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - MYF6 (80% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - MYF6 (80% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - MYF6 (80% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - MYF6 (80% AA Identity, Homo sapiens)
PBMBadis09Inferred - Myf6 (80% AA Identity, Mus musculus)
PBMZoo_01Inferred - Myf6 (80% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - MYF6 (80% AA Identity, Homo sapiens)
MiscHocoMocoInferred - MYF6 (80% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - MYOG (78% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - MYOG (78% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - MYOG (78% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - MYOG (78% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - MYOG (78% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - MYOG (78% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - MYOG (78% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - MYOG (78% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - MYOG (78% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - MYOG (78% AA Identity, Homo sapiens)
ChIP-seqJASPARInferred - Myog (78% AA Identity, Mus musculus)
MiscHocoMocoInferred - MYOG (78% AA Identity, Homo sapiens)
MiscHOMERInferred - Myog (78% AA Identity, Mus musculus)
PBMDeMasi2011Inferred - hlh-1 (76% AA Identity, Caenorhabditis elegans)
PBMGrove09Inferred - hlh-1 (76% AA Identity, Caenorhabditis elegans)
ChIP-seqJASPARInferred - hlh-1 (76% AA Identity, Caenorhabditis elegans)
MiscHOMERInferred - hlh-1 (76% AA Identity, Caenorhabditis elegans)
PBMDeMasi2011Inferred - hlh-1 (75% AA Identity, Caenorhabditis elegans)
PBMDeMasi2011Inferred - hlh-1 (75% AA Identity, Caenorhabditis elegans)
PBMDeMasi2011Inferred - hlh-1 (75% AA Identity, Caenorhabditis elegans)

Structure

Structure PDB 1MDY

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