TF Info Page for LMX1B (Homeodomain)


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


Description: LIM homeobox transcription factor 1 beta [Source:HGNC Symbol;Acc:HGNC:6654]
Entrez Summary This gene encodes a member of LIM-homeodomain family of proteins containing two N-terminal zinc-binding LIM domains, 1 homeodomain, and a C-terminal glutamine-rich domain. It functions as a transcription factor, and is essential for the normal development of dorsal limb structures, the glomerular basement membrane, the anterior segment of the eye, and dopaminergic and serotonergic neurons. Mutations in this gene are associated with nail-patella syndrome. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Mar 2010]
Ensembl ID: ENSG00000136944
External Link: CisBP
Interpro IPR001356; IPR001781; IPR009057; IPR017970;
Protein Domain: ENSP00000347684
Protein Domain: ENSP00000362573
Protein Domain: ENSP00000436930
Protein Domain: ENSP00000453580
Protein: ENSP00000347684DBD: HomeodomainOther: LIM
Protein: ENSP00000362573DBD: HomeodomainOther: LIM
Protein: ENSP00000436930DBD: HomeodomainOther: LIM
Protein: ENSP00000453580DBD: HomeodomainOther: LIM

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_DNA-Binding
PMIDS:10767331 11956245 1358758 15785774
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" Yes
GO-Info GO:0003700
sequence-specific DNA binding transcription factor activity
IDA - PMID:10767331
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
HT-SELEXYin2017Inferred - LMX1A (100% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - LMX1A (100% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - LMX1A (100% AA Identity, Homo sapiens)
PBMBerger08Inferred - Lmx1a (100% AA Identity, Mus musculus)
PBMBerger08Inferred - Lmx1b (100% AA Identity, Mus musculus)
B1HJASPARInferred - CG32105 (84% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - CG32105 (84% AA Identity, Drosophila melanogaster)
B1HJASPARInferred - CG4328 (82% AA Identity, Drosophila melanogaster)
PBMZoo_01Inferred - SNAPOd2T00003340001 (74% AA Identity, Oikopleura dioica)


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