TF Info Page for LHX1 (Homeodomain)

Conclusion

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

Description

Description: LIM homeobox 1 [Source:HGNC Symbol;Acc:HGNC:6593]
Entrez Summary This gene encodes a member of a large protein family which contains the LIM domain, a unique cysteine-rich zinc-binding domain. The encoded protein is a transcription factor important for the development of the renal and urogenital systems. This gene is a candidate for Mayer-Rokitansky-Kuster-Hauser syndrome, a disorder characterized by anomalies in the female genital tract. [provided by RefSeq, Dec 2010]
Ensembl ID: ENSG00000273706
External Link: CisBP
Interpro IPR001356; IPR001781; IPR009057; IPR017970;
Protein Domain: ENSP00000477829
Protein Domain: ENSP00000481496
Domain:
Protein: ENSP00000477829DBD: HomeodomainOther: LIM
Protein: ENSP00000481496DBD: HomeodomainOther:

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_DNA-Binding
sequence-specific_DNA Binding
Transactivation_
PMIDS:10926781
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.
b
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:0003700
sequence-specific DNA binding transcription factor activity
ISS - GO_REF:0000024
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
Methyl-HT-SELEXYin2017Direct
HT-SELEXYin2017Inferred - LHX1 (100% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - LHX1 (100% AA Identity, Homo sapiens)
PBMBerger08Inferred - Lhx1 (100% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - LHX5 (100% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - LHX5 (100% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - LHX5 (100% AA Identity, Homo sapiens)
PBMBerger08Inferred - Lhx5 (100% AA Identity, Mus musculus)
B1HJASPARInferred - Lim1 (87% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Lim1 (87% AA Identity, Drosophila melanogaster)
PBMBerger08Inferred - Lhx3 (71% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - LHX4 (71% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - LHX4 (71% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - LHX4 (71% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - LHX4 (71% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - LHX4 (71% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - LHX4 (71% AA Identity, Homo sapiens)
PBMBerger08Inferred - Lhx4 (71% AA Identity, Mus musculus)
B1HJASPARInferred - Lim3 (71% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Lim3 (71% AA Identity, Drosophila melanogaster)
PBMZoo_01Inferred - Lim3 (71% AA Identity, Drosophila melanogaster)
TransfacTransfacLicense requiredInferred - LHX3 (71% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - LHX3 (71% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - LHX3 (71% AA Identity, Homo sapiens)
SELEXJASPARInferred - Lhx3 (71% AA Identity, Mus musculus)
MiscHocoMocoInferred - LHX3 (71% AA Identity, Homo sapiens)
MiscHOMERInferred - Lhx3 (71% AA Identity, Mus musculus)

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