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

This gene encodes a member of a family of transcription factors that play a crucial role in the control of the cell cycle. The protein encoded by this gene lacks the transactivation and tumor suppressor protein association domains found in other family members, and contains a modular suppression domain that functions in the inhibition of transcription. It interacts in a complex with chromatin modifying factors. There are pseudogenes for this gene on chromosomes 22 and X. Alternative splicing results in multiple transcript variants. [provided by RefSeq, May 2013]

Ensembl ID:

ENSG00000169016

External Link:

CisBP

Interpro

IPR003316; ;

Protein Domain:

ENSP00000302159

Protein Domain:

ENSP00000370936

Protein Domain:

ENSP00000446315

Protein Domain:

ENSP00000438864

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)

Conclusion

Description

Previous Annotations

DNA-Binding

Published Motif Data

Structure

Experimental History

External Contribution