TF Info Page for LMX1B (Homeodomain)
Conclusion
| Assessment | Binding Mode | Motif Status | Notes | Comments |
|---|---|---|---|---|
| Known motif | 1 Monomer or homomultimer | High-throughput in vitro |
Description
| 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 | ||||||||||||
| Domain: |
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Previous Annotations
| Source | Annotation |
| TF-CAT classification |
TF Gene_DNA-Binding sequence-specific_Transactivation_ 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. |
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: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 |