TF Info Page for MSX2 (Homeodomain)

Conclusion

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

Description

Description: msh homeobox 2 [Source:HGNC Symbol;Acc:HGNC:7392]
Entrez Summary This gene encodes a member of the muscle segment homeobox gene family. The encoded protein is a transcriptional repressor whose normal activity may establish a balance between survival and apoptosis of neural crest-derived cells required for proper craniofacial morphogenesis. The encoded protein may also have a role in promoting cell growth under certain conditions and may be an important target for the RAS signaling pathways. Mutations in this gene are associated with parietal foramina 1 and craniosynostosis type 2. [provided by RefSeq, Jul 2008]
Ensembl ID: ENSG00000120149
External Link: CisBP
Interpro IPR001356; IPR009057; IPR017970; IPR020479;
Protein Domain: ENSP00000239243
Protein Domain: ENSP00000427425
Domain:
Protein: ENSP00000239243DBD: HomeodomainOther:
Protein: ENSP00000427425DBD: HomeodomainOther:

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_DNA-Binding
sequence-specific_Transactivation_
PMIDS:9368026 11798166 9265625 12750290
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" No
GO-Info GO:0001227
RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor
IEA - GO_REF:0000019
GO:0032792
negative regulation of CREB transcription factor activity
IEA - GO_REF:0000019
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
PBMBarrera2016Direct
PBMBarrera2016Direct
PBMBarrera2016Direct
HT-SELEXJolma2013Direct
HT-SELEXJolma2013Direct
HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
MiscHocoMocoDirect
PBMBerger08Inferred - Msx2 (100% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - MSX1 (96% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - MSX1 (96% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - MSX1 (96% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - MSX1 (96% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - MSX1 (96% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - MSX1 (96% AA Identity, Homo sapiens)
PBMBerger08Inferred - Msx1 (96% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - MSX1 (96% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - MSX1 (96% AA Identity, Homo sapiens)
PBMBerger08Inferred - Msx3 (94% AA Identity, Mus musculus)
PBMBusserDevelopment2012Inferred - Dr (91% AA Identity, Drosophila melanogaster)
B1HJASPARInferred - Dr (91% AA Identity, Drosophila melanogaster)

Structure

Structure PDB Not_Covered

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