The Human Transcription Factors

Conclusion

Assessment	Binding Mode	Motif Status	Notes	Comments
Known motif	1 Monomer or homomultimer	In vivo/Misc source	Only known motifs are from Transfac or HocoMoco - origin is uncertain

Description

Description:	runt related transcription factor 1 [Source:HGNC Symbol;Acc:HGNC:10471]
Entrez Summary	TBA
Ensembl ID:	ENSG00000159216
External Link:	T139289_1.02
Interpro	IPR000040; IPR008967; IPR013524; IPR013711; IPR016554; ;
Protein Domain:
Protein: ENSP00000300305	DBD: RUNX	Other: RunxI
Protein: ENSP00000340690	DBD: RUNX	Other: RunxI
Protein: ENSP00000351123	DBD: RUNX	Other:
Protein: ENSP00000405158	DBD: RUNX	Other:
Protein: ENSP00000382184	DBD: RUNX	Other: RunxI
Protein: ENSP00000388189	DBD: RUNX	Other:

Previous Annotations

Source	Annotation
TF-CAT classification	TF Gene_DNA-Binding sequence-specific_Transactivation_ PMIDS:7609063 8035830
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:0001228 RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor IDA - PMID:9199349 \| IMP - PMID:9199349
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
Transfac	Transfac	License required	Direct
Transfac	Transfac	License required	Direct
Transfac	Transfac	License required	Direct
Transfac	Transfac	License required	Direct
Transfac	Transfac	License required	Direct
Misc	HocoMoco		Direct
Misc	HOMER		Direct
Misc	HOMER		Direct
ChIP-seq	JASPAR		Inferred - Runx1 (100% AA Identity, Mus musculus)
Misc	HOMER		Inferred - Runx1 (100% AA Identity, Mus musculus)
HT-SELEX	Jolma2010		Inferred - RUNX3 (93% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - RUNX3 (93% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - RUNX3 (93% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - RUNX3 (93% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - RUNX3 (93% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - RUNX3 (93% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - RUNX3 (93% AA Identity, Homo sapiens)
Misc	HocoMoco		Inferred - RUNX3 (93% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - RUNX2 (92% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - RUNX2 (92% AA Identity, Homo sapiens)
PBM	TF_Evolution	Unpublished Data	Inferred - Runx2 (92% AA Identity, Mus musculus)
SELEX	JASPAR		Inferred - RUNX2 (92% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - RUNX2 (92% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - RUNX2 (92% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - RUNX2 (92% AA Identity, Homo sapiens)
Misc	HocoMoco		Inferred - RUNX2 (92% AA Identity, Homo sapiens)
Misc	HOMER		Inferred - RUNX2 (92% AA Identity, Homo sapiens)

Structure

Structure	PDB	1HJC

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

{"regions": [{"startStyle": "curved", "end": 207, "endStyle": "curved", "aliStart": 79, "text": "Runt", "colour": "#228B22", "aliEnd": 206, "start": 78, "href": "http://pfam.xfam.org/family/PF00853.17", "type": "pfama", "display": "true", "metadata": {"end": 207, "description": "The AML1 gene is rearranged by the t(8;21) translocation in acute myeloid leukemia [PUBMED:7651838]. The gene is highly similar to the Drosophila melanogaster segmentation gene runt and to the mouse transcription factor PEBP2 alpha subunit gene [PUBMED:7651838]. The region of shared similarity, known as the Runt domain, is responsible for DNA-binding and protein-protein interaction.", "database": "PfamA", "aliStart": 79, "scoreName": "E-value", "accession": "PF00853.17", "start": 78, "score": 1.6e-73, "identifier": "Runt domain", "type": "DBD", "aliEnd": 206}}, {"startStyle": "straight", "end": 480, "endStyle": "straight", "aliStart": 390, "text": "RunxI", "colour": "#9999ff", "aliEnd": 480, "start": 389, "href": "http://pfam.xfam.org/family/PF08504.9", "type": "pfama", "display": "true", "metadata": {"end": 480, "description": "This domain lies to the C-terminus of Runx-related transcription factors and homologous proteins (AML, CBF-alpha, PEBP2).  Its function might be to interact with functional cofactors [1].", "database": "PfamA", "aliStart": 390, "scoreName": "E-value", "accession": "PF08504.9", "start": 389, "score": 2.9999999999999996e-42, "identifier": "Runx inhibition domain", "type": "DBD", "aliEnd": 480}}], "length": 481}

{"regions": [{"startStyle": "curved", "end": 180, "endStyle": "curved", "aliStart": 52, "text": "Runt", "colour": "#228B22", "aliEnd": 179, "start": 51, "href": "http://pfam.xfam.org/family/PF00853.17", "type": "pfama", "display": "true", "metadata": {"end": 180, "description": "The AML1 gene is rearranged by the t(8;21) translocation in acute myeloid leukemia [PUBMED:7651838]. The gene is highly similar to the Drosophila melanogaster segmentation gene runt and to the mouse transcription factor PEBP2 alpha subunit gene [PUBMED:7651838]. The region of shared similarity, known as the Runt domain, is responsible for DNA-binding and protein-protein interaction.", "database": "PfamA", "aliStart": 52, "scoreName": "E-value", "accession": "PF00853.17", "start": 51, "score": 1.3999999999999999e-73, "identifier": "Runt domain", "type": "DBD", "aliEnd": 179}}, {"startStyle": "straight", "end": 453, "endStyle": "straight", "aliStart": 363, "text": "RunxI", "colour": "#9999ff", "aliEnd": 453, "start": 362, "href": "http://pfam.xfam.org/family/PF08504.9", "type": "pfama", "display": "true", "metadata": {"end": 453, "description": "This domain lies to the C-terminus of Runx-related transcription factors and homologous proteins (AML, CBF-alpha, PEBP2).  Its function might be to interact with functional cofactors [1].", "database": "PfamA", "aliStart": 363, "scoreName": "E-value", "accession": "PF08504.9", "start": 362, "score": 2.7000000000000003e-42, "identifier": "Runx inhibition domain", "type": "DBD", "aliEnd": 453}}], "length": 454}

{"regions": [{"startStyle": "curved", "end": 180, "endStyle": "curved", "aliStart": 52, "text": "Runt", "colour": "#228B22", "aliEnd": 179, "start": 51, "href": "http://pfam.xfam.org/family/PF00853.17", "type": "pfama", "display": "true", "metadata": {"end": 180, "description": "The AML1 gene is rearranged by the t(8;21) translocation in acute myeloid leukemia [PUBMED:7651838]. The gene is highly similar to the Drosophila melanogaster segmentation gene runt and to the mouse transcription factor PEBP2 alpha subunit gene [PUBMED:7651838]. The region of shared similarity, known as the Runt domain, is responsible for DNA-binding and protein-protein interaction.", "database": "PfamA", "aliStart": 52, "scoreName": "E-value", "accession": "PF00853.17", "start": 51, "score": 3.9e-73, "identifier": "Runt domain", "type": "DBD", "aliEnd": 179}}, {"startStyle": "straight", "end": 389, "endStyle": "straight", "aliStart": 299, "text": "RunxI", "colour": "#9999ff", "aliEnd": 389, "start": 298, "href": "http://pfam.xfam.org/family/PF08504.9", "type": "pfama", "display": "true", "metadata": {"end": 389, "description": "This domain lies to the C-terminus of Runx-related transcription factors and homologous proteins (AML, CBF-alpha, PEBP2).  Its function might be to interact with functional cofactors [1].", "database": "PfamA", "aliStart": 299, "scoreName": "E-value", "accession": "PF08504.9", "start": 298, "score": 2.1e-42, "identifier": "Runx inhibition domain", "type": "DBD", "aliEnd": 389}}], "length": 390}

TF Info Page for RUNX1 (Runt)