The Human Transcription Factors

Conclusion

Assessment	Binding Mode	Motif Status	Notes	Comments
Known motif	1 Monomer or homomultimer	In vivo/Misc source

Description

Description:	E2F transcription factor 6 [Source:HGNC Symbol;Acc:HGNC:3120]
Entrez Summary	TBA
Ensembl ID:	ENSG00000169016
External Link:	T076679_1.02
Interpro	IPR003316; ;
Protein Domain:
Protein: ENSP00000302159	DBD: E2F	Other: E2F_CC-MB
Protein: ENSP00000370936	DBD: E2F	Other: E2F_CC-MB
Protein: ENSP00000446315	DBD: E2F	Other: E2F_CC-MB
Protein: ENSP00000438864	DBD: E2F	Other: E2F_CC-MB

Previous Annotations

Source	Annotation
TF-CAT classification	TF Gene_DNA-Binding sequence-specific_DNA Binding_ PMIDS:15574595 15936277
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"	No
GO-Info	GO:0003700 sequence-specific DNA binding transcription factor activity IEA - GO_REF:0000019
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
ChIP-seq	ENCODE		Direct
ChIP-seq	ENCODE		Direct
ChIP-seq	ENCODE		Direct
ChIP-seq	JASPAR		Direct
Transfac	Transfac	License required	Direct
Transfac	Transfac	License required	Direct
Misc	HocoMoco		Direct
Misc	HOMER		Direct

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

Name
Email
Comment
Reference

{"regions": [{"startStyle": "curved", "end": 96, "endStyle": "curved", "aliStart": 33, "text": "E2F", "colour": "#228B22", "aliEnd": 96, "start": 32, "href": "http://pfam.xfam.org/family/PF02319.18", "type": "pfama", "display": "true", "metadata": {"end": 96, "description": "This family contains the transcription factor E2F and  its dimerisation partners TDP1 and TDP2, which stimulate E2F-dependent transcription. E2F binds to DNA as a  homodimer or as a heterodimer in association with TDP1/2, the heterodimer having increased binding efficiency. The crystal structure of an E2F4-DP2-DNA complex shows  that the DNA-binding domains of the E2F and DP proteins both have a fold related to the winged-helix DNA-binding motif. Recognition of the central c/gGCGCg/c sequence of the consensus DNA-binding site is symmetric, and amino acids that contact these bases are conserved among all known E2F and DP proteins.", "database": "PfamA", "aliStart": 33, "scoreName": "E-value", "accession": "PF02319.18", "start": 32, "score": 7.7e-24, "identifier": "E2F/DP family winged-helix DNA-binding domain", "type": "DBD", "aliEnd": 96}}, {"startStyle": "straight", "end": 205, "endStyle": "straight", "aliStart": 111, "text": "E2F_CC-MB", "colour": "#9999ff", "aliEnd": 204, "start": 111, "href": "http://pfam.xfam.org/family/PF16421.3", "type": "pfama", "display": "true", "metadata": {"end": 205, "description": "This is the coiled coil (CC) - marked box (MB) domain of E2F transcription factors. This domain forms a heterodimer with the corresponding domain of the DP transcription factor, the heterodimer binds the C-terminus of retinoblastoma protein [1].", "database": "PfamA", "aliStart": 111, "scoreName": "E-value", "accession": "PF16421.3", "start": 111, "score": 9.3e-33, "identifier": "E2F transcription factor CC-MB domain", "type": "DBD", "aliEnd": 204}}], "length": 250}

{"regions": [{"startStyle": "curved", "end": 128, "endStyle": "curved", "aliStart": 65, "text": "E2F", "colour": "#228B22", "aliEnd": 128, "start": 64, "href": "http://pfam.xfam.org/family/PF02319.18", "type": "pfama", "display": "true", "metadata": {"end": 128, "description": "This family contains the transcription factor E2F and  its dimerisation partners TDP1 and TDP2, which stimulate E2F-dependent transcription. E2F binds to DNA as a  homodimer or as a heterodimer in association with TDP1/2, the heterodimer having increased binding efficiency. The crystal structure of an E2F4-DP2-DNA complex shows  that the DNA-binding domains of the E2F and DP proteins both have a fold related to the winged-helix DNA-binding motif. Recognition of the central c/gGCGCg/c sequence of the consensus DNA-binding site is symmetric, and amino acids that contact these bases are conserved among all known E2F and DP proteins.", "database": "PfamA", "aliStart": 65, "scoreName": "E-value", "accession": "PF02319.18", "start": 64, "score": 3.5000000000000004e-24, "identifier": "E2F/DP family winged-helix DNA-binding domain", "type": "DBD", "aliEnd": 128}}, {"startStyle": "straight", "end": 237, "endStyle": "straight", "aliStart": 143, "text": "E2F_CC-MB", "colour": "#9999ff", "aliEnd": 236, "start": 143, "href": "http://pfam.xfam.org/family/PF16421.3", "type": "pfama", "display": "true", "metadata": {"end": 237, "description": "This is the coiled coil (CC) - marked box (MB) domain of E2F transcription factors. This domain forms a heterodimer with the corresponding domain of the DP transcription factor, the heterodimer binds the C-terminus of retinoblastoma protein [1].", "database": "PfamA", "aliStart": 143, "scoreName": "E-value", "accession": "PF16421.3", "start": 143, "score": 1.1999999999999999e-32, "identifier": "E2F transcription factor CC-MB domain", "type": "DBD", "aliEnd": 236}}], "length": 282}

{"regions": [{"startStyle": "jagged", "end": 53, "endStyle": "curved", "aliStart": 2, "text": "E2F", "colour": "#228B22", "aliEnd": 53, "start": 1, "href": "http://pfam.xfam.org/family/PF02319.18", "type": "pfama", "display": "true", "metadata": {"end": 53, "description": "This family contains the transcription factor E2F and  its dimerisation partners TDP1 and TDP2, which stimulate E2F-dependent transcription. E2F binds to DNA as a  homodimer or as a heterodimer in association with TDP1/2, the heterodimer having increased binding efficiency. The crystal structure of an E2F4-DP2-DNA complex shows  that the DNA-binding domains of the E2F and DP proteins both have a fold related to the winged-helix DNA-binding motif. Recognition of the central c/gGCGCg/c sequence of the consensus DNA-binding site is symmetric, and amino acids that contact these bases are conserved among all known E2F and DP proteins.", "database": "PfamA", "aliStart": 2, "scoreName": "E-value", "accession": "PF02319.18", "start": 1, "score": 3.8e-19, "identifier": "E2F/DP family winged-helix DNA-binding domain", "type": "DBD", "aliEnd": 53}}, {"startStyle": "straight", "end": 162, "endStyle": "straight", "aliStart": 68, "text": "E2F_CC-MB", "colour": "#9999ff", "aliEnd": 161, "start": 68, "href": "http://pfam.xfam.org/family/PF16421.3", "type": "pfama", "display": "true", "metadata": {"end": 162, "description": "This is the coiled coil (CC) - marked box (MB) domain of E2F transcription factors. This domain forms a heterodimer with the corresponding domain of the DP transcription factor, the heterodimer binds the C-terminus of retinoblastoma protein [1].", "database": "PfamA", "aliStart": 68, "scoreName": "E-value", "accession": "PF16421.3", "start": 68, "score": 6.4e-33, "identifier": "E2F transcription factor CC-MB domain", "type": "DBD", "aliEnd": 161}}], "length": 207}

TF Info Page for E2F6 (E2F)