The Human Transcription Factors

Conclusion

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

Description

Description:	estrogen receptor 1 [Source:HGNC Symbol;Acc:HGNC:3467]
Entrez Summary	TBA
Ensembl ID:	ENSG00000091831
External Link:	T132745_1.02
Interpro	IPR000536; IPR001292; IPR001628; IPR001723; IPR008946; IPR024178; IPR024736; ;
Protein Domain:
Protein: ENSP00000206249	DBD: Nuclear Hormone Receptor	Other: ESR1_C, Hormone_recep, Oest_recep
Protein: ENSP00000385373	DBD: Nuclear Hormone Receptor	Other: Oest_recep
Protein: ENSP00000384064	DBD: Nuclear Hormone Receptor	Other: ESR1_C, Hormone_recep, Oest_recep
Protein: ENSP00000401995	DBD: Nuclear Hormone Receptor	Other: Hormone_recep
Protein: ENSP00000394721	DBD: Nuclear Hormone Receptor	Other: Hormone_recep
Protein: ENSP00000411105	DBD: Nuclear Hormone Receptor	Other: Oest_recep
Protein: ENSP00000415934	DBD: Nuclear Hormone Receptor	Other: Oest_recep

Previous Annotations

Source	Annotation
TF-CAT classification	TF Gene_DNA-Binding sequence-specific_DNA Binding_ PMIDS:10908317 16636675
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 IDA - PMID:12047722 GO:0003700 sequence-specific DNA binding transcription factor activity NAS - PMID:12552091 GO:0038052 estrogen-activated sequence-specific DNA binding RNA polymerase II transcription factor activity IDA - PMID:15831516 \| IGI - PMID:18722177 GO:0043433 negative regulation of sequence-specific DNA binding transcription factor activity IDA - PMID:10816575 GO:0051091 positive regulation of sequence-specific DNA binding transcription factor activity IDA - PMID:10681512, PMID:9328340
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
HT-SELEX	Jolma2013		Direct
HT-SELEX	Yin2017		Direct
HT-SELEX	Yin2017		Direct
Methyl-HT-SELEX	Yin2017		Direct
Methyl-HT-SELEX	Yin2017		Direct
ChIP-seq	ENCODE		Direct
SELEX	JASPAR		Direct
ChIP-seq	modENCODE		Direct
ChIP-seq	modENCODE		Direct
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
Transfac	Transfac	License required	Direct
Transfac	Transfac	License required	Direct
Misc	HocoMoco		Direct
Misc	HOMER		Direct
PBM	DREAM_contest		Inferred - Esr1 (100% AA Identity, Mus musculus)
PBM	TF_Evolution	Unpublished Data	Inferred - Esr2 (92% AA Identity, Mus musculus)
ChIP-seq	JASPAR		Inferred - ESR2 (92% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - ESR2 (92% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - ESR2 (92% AA Identity, Homo sapiens)
Misc	HocoMoco		Inferred - ESR2 (92% AA Identity, Homo sapiens)
Misc	HocoMoco		Inferred - ESR2 (92% AA Identity, Homo sapiens)
PBM	Zoo_01		Inferred - Q6VU64_APLCA (81% AA Identity, Aplysia californica)

Structure

Structure	PDB	1HCQ

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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{"regions": [{"startStyle": "straight", "end": 160, "endStyle": "jagged", "aliStart": 42, "text": "Oest_recep", "colour": "#9999ff", "aliEnd": 153, "start": 42, "href": "http://pfam.xfam.org/family/PF02159.13", "type": "pfama", "display": "true", "metadata": {"end": 160, "description": NaN, "database": "PfamA", "aliStart": 42, "scoreName": "E-value", "accession": "PF02159.13", "start": 42, "score": 1.6999999999999998e-48, "identifier": "Oestrogen receptor", "type": "DBD", "aliEnd": 153}}, {"startStyle": "straight", "end": 334, "endStyle": "straight", "aliStart": 291, "text": "ESR1_C", "colour": "#9999ff", "aliEnd": 334, "start": 291, "href": "http://pfam.xfam.org/family/PF12743.5", "type": "pfama", "display": "true", "metadata": {"end": 334, "description": "This is the very C-terminal region of a subfamily of nuclear receptors that includes oestrogen receptors and other subfamily 3 group A members. The actual function of this region is not known, but the domain is absent from all the other types of nuclear receptors. Oestrogen receptors modulate AP-1-dependent transcription [1] through two distinct mechanisms: via protein-protein interactions on DNA; and via non-genomic actions. The mechanism used depends on the cellular localisation of the receptor. In addition to the more extensively studied cross-talk on DNA, additional non-genomic actions might be very important in target tissues in which membrane-associated ERs are found. These non-genomic actions probably contribute to the overall physiological responses mediated by ligand-bound ERs [2] and might possibly be mediated via this C-terminal domain.", "database": "PfamA", "aliStart": 291, "scoreName": "E-value", "accession": "PF12743.5", "start": 291, "score": 1.1000000000000001e-23, "identifier": "Oestrogen-type nuclear receptor final C-terminal ", "type": "DBD", "aliEnd": 334}}, {"startStyle": "jagged", "end": 270, "endStyle": "straight", "aliStart": 150, "text": "Hormone_recep", "colour": "#9999ff", "aliEnd": 269, "start": 127, "href": "http://pfam.xfam.org/family/PF00104.28", "type": "pfama", "display": "true", "metadata": {"end": 270, "description": "This all helical domain is involved in binding the hormone in these receptors.", "database": "PfamA", "aliStart": 150, "scoreName": "E-value", "accession": "PF00104.28", "start": 127, "score": 1.3999999999999999e-14, "identifier": "Ligand-binding domain of nuclear hormone receptor", "type": "DBD", "aliEnd": 269}}], "length": 335}

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{"regions": [{"startStyle": "curved", "end": 79, "endStyle": "curved", "aliStart": 11, "text": "NHR", "colour": "#2cb42c", "aliEnd": 79, "start": 10, "href": "http://pfam.xfam.org/family/PF00105.16", "type": "pfama", "display": "true", "metadata": {"end": 79, "description": "In nearly all cases, this is the DNA binding domain of a nuclear hormone receptor. The alignment contains two Zinc finger domains that are too dissimilar to be aligned with each other.", "database": "PfamA", "aliStart": 11, "scoreName": "E-value", "accession": "PF00105.16", "start": 10, "score": 5.5e-32, "identifier": "Zinc finger, C4 type (two domains)", "type": "DBD", "aliEnd": 79}}, {"startStyle": "straight", "end": 302, "endStyle": "jagged", "aliStart": 163, "text": "Hormone_recep", "colour": "#9999ff", "aliEnd": 282, "start": 159, "href": "http://pfam.xfam.org/family/PF00104.28", "type": "pfama", "display": "true", "metadata": {"end": 302, "description": "This all helical domain is involved in binding the hormone in these receptors.", "database": "PfamA", "aliStart": 163, "scoreName": "E-value", "accession": "PF00104.28", "start": 159, "score": 9.7e-26, "identifier": "Ligand-binding domain of nuclear hormone receptor", "type": "DBD", "aliEnd": 282}}], "length": 311}

TF Info Page for ESR1 (Nuclear receptor)