The Human Transcription Factors

Conclusion

Assessment	Binding Mode	Motif Status	Notes	Comments
Known motif	1 Monomer or homomultimer	100 perc ID - in vitro		Also heterodimerizes.

Description

Description:	peroxisome proliferator activated receptor gamma [Source:HGNC Symbol;Acc:HGNC:9236]
Entrez Summary	TBA
Ensembl ID:	ENSG00000132170
External Link:
Interpro	IPR000536; IPR001628; IPR001723; IPR003074; IPR003077; IPR008946; IPR022590; ;
Protein Domain:
Protein: ENSP00000287820	DBD: Nuclear Hormone Receptor	Other: Hormone_recep, PPARgamma_N
Protein: ENSP00000380196	DBD: Nuclear Hormone Receptor	Other: PPARgamma_N
Protein: ENSP00000380205	DBD: Nuclear Hormone Receptor	Other: Hormone_recep, PPARgamma_N
Protein: ENSP00000380207	DBD: Nuclear Hormone Receptor	Other: Hormone_recep, PPARgamma_N
Protein: ENSP00000380210	DBD: Nuclear Hormone Receptor	Other: Hormone_recep, PPARgamma_N
Protein: ENSP00000411931	DBD: Nuclear Hormone Receptor	Other: PPARgamma_N
Protein: ENSP00000312472	DBD: Nuclear Hormone Receptor	Other: Hormone_recep, PPARgamma_N
Protein: ENSP00000380224	DBD: Nuclear Hormone Receptor	Other: PPARgamma_N
Protein: ENSP00000392285	DBD: Nuclear Hormone Receptor	Other: PPARgamma_N

Previous Annotations

Source	Annotation
TF-CAT classification	TF Gene_DNA-Binding sequence-specific_Transactivation_ PMIDS:14744933 15681609
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:0003700 sequence-specific DNA binding transcription factor activity IDA - PMID:9568715 \| ISS - GO_REF:0000024 GO:0004879 ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity IDA - PMID:10622252 GO:0051091 positive regulation of sequence-specific DNA binding transcription factor activity IDA - PMID:18293083
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	Obligate_Multimer

DNA-Binding

Published Motif Data

Source	Annotation	Motif	Evidence
SELEX	JASPAR		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	HocoMoco		Direct
SMiLE-seq	Isakova2017		Inferred - Pparg (100% AA Identity, Mus musculus)
Misc	HOMER		Inferred - Pparg (100% AA Identity, Mus musculus)
Transfac	Transfac	License required	Inferred - PPARA (84% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - PPARA (84% AA Identity, Homo sapiens)
Misc	HocoMoco		Inferred - PPARA (84% AA Identity, Homo sapiens)
Misc	HocoMoco		Inferred - PPARA (84% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - PPARD (82% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - PPARD (82% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - PPARD (82% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - PPARD (82% AA Identity, Homo sapiens)
Misc	HocoMoco		Inferred - PPARD (82% AA Identity, Homo sapiens)

Structure

Structure	PDB	3DZU

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": "curved", "end": 177, "endStyle": "curved", "aliStart": 110, "text": "NHR", "colour": "#2cb42c", "aliEnd": 176, "start": 109, "href": "http://pfam.xfam.org/family/PF00105.16", "type": "pfama", "display": "true", "metadata": {"end": 177, "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": 110, "scoreName": "E-value", "accession": "PF00105.16", "start": 109, "score": 1.6e-27, "identifier": "Zinc finger, C4 type (two domains)", "type": "DBD", "aliEnd": 176}}, {"startStyle": "straight", "end": 80, "endStyle": "straight", "aliStart": 3, "text": "PPARgamma_N", "colour": "#9999ff", "aliEnd": 80, "start": 3, "href": "http://pfam.xfam.org/family/PF12577.6", "type": "pfama", "display": "true", "metadata": {"end": 80, "description": "Peroxisome proliferator-activated receptors (PPAR) are nuclear hormone receptors that control the expression of genes involved in lipid homeostasis in mammals.  This sequence region is found at the N-terminus of these proteins. The family is found in association with Pfam:PF00104, Pfam:PF00105. It is not clear if this region is a separate protein domain.", "database": "PfamA", "aliStart": 3, "scoreName": "E-value", "accession": "PF12577.6", "start": 3, "score": 1.1999999999999999e-32, "identifier": "PPAR gamma N-terminal region", "type": "DBD", "aliEnd": 80}}, {"startStyle": "jagged", "end": 458, "endStyle": "straight", "aliStart": 293, "text": "Hormone_recep", "colour": "#9999ff", "aliEnd": 457, "start": 271, "href": "http://pfam.xfam.org/family/PF00104.28", "type": "pfama", "display": "true", "metadata": {"end": 458, "description": "This all helical domain is involved in binding the hormone in these receptors.", "database": "PfamA", "aliStart": 293, "scoreName": "E-value", "accession": "PF00104.28", "start": 271, "score": 1.1000000000000001e-16, "identifier": "Ligand-binding domain of nuclear hormone receptor", "type": "DBD", "aliEnd": 457}}], "length": 478}

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TF Info Page for PPARG (Nuclear receptor)