The Human Transcription Factors

Conclusion

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

Description

Description:

lymphoid enhancer binding factor 1 [Source:HGNC Symbol;Acc:HGNC:6551]

Entrez Summary

This gene encodes a transcription factor belonging to a family of proteins that share homology with the high mobility group protein-1. The protein encoded by this gene can bind to a functionally important site in the T-cell receptor-alpha enhancer, thereby conferring maximal enhancer activity. This transcription factor is involved in the Wnt signaling pathway, and it may function in hair cell differentiation and follicle morphogenesis. Mutations in this gene have been found in somatic sebaceous tumors. This gene has also been linked to other cancers, including androgen-independent prostate cancer. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Oct 2009]

Ensembl ID:

ENSG00000138795

External Link:

CisBP

Interpro

IPR009071; IPR013558;

Protein Domain:

ENSP00000265165

Protein Domain:

ENSP00000369284

Protein Domain:

ENSP00000406176

Protein Domain:

ENSP00000422840

Protein Domain:

ENSP00000427365

Protein Domain:

ENSP00000422801

Domain:

Protein: ENSP00000265165	DBD: HMG	Other: CTNNB1_binding
Protein: ENSP00000369284	DBD: HMG	Other: CTNNB1_binding
Protein: ENSP00000406176	DBD: HMG	Other: CTNNB1_binding
Protein: ENSP00000422840	DBD: HMG	Other: CTNNB1_binding
Protein: ENSP00000427365	DBD: HMG	Other: CTNNB1_binding
Protein: ENSP00000422801	DBD: HMG	Other: CTNNB1_binding

Previous Annotations

Source	Annotation
TF-CAT classification	TF Gene_DNA-Binding sequence-specific_TF PPI_ PMIDS:10958684 11696550 14579381
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:0001077 RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor a IEA - GO_REF:0000019 GO:0001228 RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor IMP - PMID:23001182 GO:0003700 sequence-specific DNA binding transcription factor activity IDA - PMID:11751639 GO:0003705 RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity IBA - GO_REF:0000033
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
SMiLE-seq	Isakova2017		Direct
HT-SELEX	Jolma2013		Direct
HT-SELEX	Yin2017		Direct
HT-SELEX	Yin2017		Direct
HT-SELEX	Yin2017		Direct
HT-SELEX	Yin2017		Direct
Methyl-HT-SELEX	Yin2017		Direct
Methyl-HT-SELEX	Yin2017		Direct
Methyl-HT-SELEX	Yin2017		Direct
Methyl-HT-SELEX	Yin2017		Direct
Transfac	Transfac	License required	Direct
Transfac	Transfac	License required	Direct
Transfac	Transfac	License required	Direct
Transfac	Transfac	License required	Direct
Misc	HocoMoco		Direct
PBM	Badis09		Inferred - Lef1 (100% AA Identity, Mus musculus)
PBM	Badis09		Inferred - Tcf7l2 (98% AA Identity, Mus musculus)
ChIP-seq	JASPAR		Inferred - TCF7L2 (98% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - TCF7L2 (98% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - TCF7L2 (98% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - TCF7L2 (98% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - TCF7L2 (98% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - TCF7L2 (98% AA Identity, Homo sapiens)
Misc	HocoMoco		Inferred - TCF7L2 (98% AA Identity, Homo sapiens)
Misc	HOMER		Inferred - TCF7L2 (98% AA Identity, Homo sapiens)
SMiLE-seq	Isakova2017		Inferred - TCF7 (97% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - TCF7 (97% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - TCF7 (97% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - TCF7 (97% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - TCF7 (97% AA Identity, Homo sapiens)
PBM	Badis09		Inferred - Tcf7 (97% AA Identity, Mus musculus)
Transfac	Transfac	License required	Inferred - TCF7 (97% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - TCF7 (97% AA Identity, Homo sapiens)
Misc	HocoMoco		Inferred - TCF7 (97% AA Identity, Homo sapiens)

Structure

Structure	PDB	2LEF

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

Name
Email
Comment
Reference

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TF Info Page for LEF1 (HMG/Sox)

Conclusion

Description

Previous Annotations

DNA-Binding

Published Motif Data

Structure

Experimental History

External Contribution