The Human Transcription Factors

Conclusion

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

Description

Description:	nuclear factor of activated T-cells 2 [Source:HGNC Symbol;Acc:HGNC:7776]
Entrez Summary	TBA
Ensembl ID:	ENSG00000101096
External Link:	T138167_1.02
Interpro	IPR002909; IPR008366; IPR008967; IPR011539; IPR014756; ;
Protein Domain:
Protein: ENSP00000360619	DBD: RHD	Other: RHD_dimer, TIG
Protein: ENSP00000379330	DBD: RHD	Other: RHD_dimer, TIG
Protein: ENSP00000396471	DBD: RHD	Other: RHD_dimer, TIG
Protein: ENSP00000477342	DBD: RHD	Other: RHD_dimer, TIG
Protein: ENSP00000477370	DBD: RHD	Other: RHD_dimer, TIG
Protein: ENSP00000477142	DBD: RHD	Other: RHD_dimer, TIG

Previous Annotations

Source	Annotation
TF-CAT classification	TF Gene_DNA-Binding sequence-specific_DNA Binding_ PMIDS:10692237 11786533 8313907 8397339 15684054 12453415 14688323
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 IEA - GO_REF:0000019 GO:0001078 RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor a IEA - GO_REF:0000019 GO:0003700 sequence-specific DNA binding transcription factor activity TAS - PMID:8668213
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	Yin2017		Direct
HT-SELEX	Yin2017		Direct
Methyl-HT-SELEX	Yin2017		Direct
Methyl-HT-SELEX	Yin2017		Direct
PBM	Zoo_01		Direct
COMPILED	JASPAR		Direct
Transfac	Transfac	License required	Direct
Transfac	Transfac	License required	Direct
Transfac	Transfac	License required	Direct
Misc	HocoMoco		Direct
PBM	Zoo_01		Inferred - NFATC1 (84% AA Identity, Meleagris gallopavo)
HT-SELEX	Jolma2010		Inferred - NFATC1 (83% AA Identity, Homo sapiens)
HT-SELEX	Jolma2010		Inferred - NFATC1 (83% AA Identity, Homo sapiens)
HT-SELEX	Jolma2010		Inferred - NFATC1 (83% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - NFATC1 (83% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - NFATC1 (83% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - NFATC1 (83% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - NFATC1 (83% AA Identity, Homo sapiens)
PBM	Zoo_01		Inferred - NFATC1 (83% AA Identity, Monodelphis domestica)
PBM	Zoo_01		Inferred - nfatc1 (83% AA Identity, Xenopus tropicalis)
Transfac	Transfac	License required	Inferred - NFATC1 (83% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - NFATC1 (83% AA Identity, Homo sapiens)
Misc	HocoMoco		Inferred - NFATC1 (83% AA Identity, Homo sapiens)
Misc	HocoMoco		Inferred - NFATC1 (83% AA Identity, Homo sapiens)
Misc	HOMER		Inferred - NFATC1 (83% AA Identity, Homo sapiens)
PBM	Zoo_01		Inferred - NFATC2 (78% AA Identity, Tetraodon nigroviridis)
HT-SELEX	Yin2017		Inferred - NFATC3 (78% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - NFATC3 (78% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - NFATC3 (78% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - NFATC3 (78% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - NFATC3 (78% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - NFATC3 (78% AA Identity, Homo sapiens)
PBM	Zoo_01		Inferred - NFATC3 (78% AA Identity, Homo sapiens)
PBM	TF_Evolution	Unpublished Data	Inferred - NFATC4 (78% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - NFATC4 (78% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - NFATC4 (78% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - NFATC4 (78% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - NFATC4 (78% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - NFATC3 (78% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - NFATC4 (78% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - NFATC4 (78% AA Identity, Homo sapiens)
Misc	HocoMoco		Inferred - NFATC3 (78% AA Identity, Homo sapiens)
Misc	HocoMoco		Inferred - NFATC4 (78% AA Identity, Homo sapiens)

Structure

Structure	PDB	1A02

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": 550, "endStyle": "curved", "aliStart": 390, "text": "RHD", "colour": "#2cb42c", "aliEnd": 550, "start": 390, "href": "http://pfam.xfam.org/family/PF00554.20", "type": "pfama", "display": "true", "metadata": {"end": 550, "description": "Proteins containing the Rel homology domain (RHD) are eukaryotic transcription factors. ", "database": "PfamA", "aliStart": 390, "scoreName": "E-value", "accession": "PF00554.20", "start": 390, "score": 1.4e-22, "identifier": "Rel homology DNA-binding domain", "type": "DBD", "aliEnd": 550}}, {"startStyle": "straight", "end": 659, "endStyle": "straight", "aliStart": 560, "text": "RHD_dimer", "colour": "#9999ff", "aliEnd": 657, "start": 559, "href": "http://pfam.xfam.org/family/PF16179.3", "type": "pfama", "display": "true", "metadata": {"end": 659, "description": "The Rel homology domain (RHD) is composed of two structural domains, an N-terminal DNA_binding domain (Pfam:PF00554) and a C-terminal dimerisation domain. This is the dimerisation domain [1].", "database": "PfamA", "aliStart": 560, "scoreName": "E-value", "accession": "PF16179.3", "start": 559, "score": 1.9000000000000001e-25, "identifier": "Rel homology dimerisation domain", "type": "DBD", "aliEnd": 657}}, {"startStyle": "jagged", "end": 655, "endStyle": "straight", "aliStart": 567, "text": "TIG", "colour": "#9999ff", "aliEnd": 655, "start": 558, "href": "http://pfam.xfam.org/family/PF01833.22", "type": "pfama", "display": "true", "metadata": {"end": 655, "description": "This family consists of a domain that has an immunoglobulin like fold. These domains are found in cell surface receptors such as Met and Ron as well as in intracellular transcription factors where it is involved in DNA binding. CAUTION: This family does not currently recognise a significant number of members.", "database": "PfamA", "aliStart": 567, "scoreName": "E-value", "accession": "PF01833.22", "start": 558, "score": 4.5e-07, "identifier": "IPT/TIG domain", "type": "DBD", "aliEnd": 655}}], "length": 902}

{"regions": [{"startStyle": "curved", "end": 351, "endStyle": "curved", "aliStart": 191, "text": "RHD", "colour": "#2cb42c", "aliEnd": 351, "start": 191, "href": "http://pfam.xfam.org/family/PF00554.20", "type": "pfama", "display": "true", "metadata": {"end": 351, "description": "Proteins containing the Rel homology domain (RHD) are eukaryotic transcription factors. ", "database": "PfamA", "aliStart": 191, "scoreName": "E-value", "accession": "PF00554.20", "start": 191, "score": 9.199999999999999e-23, "identifier": "Rel homology DNA-binding domain", "type": "DBD", "aliEnd": 351}}, {"startStyle": "straight", "end": 460, "endStyle": "straight", "aliStart": 361, "text": "RHD_dimer", "colour": "#9999ff", "aliEnd": 458, "start": 360, "href": "http://pfam.xfam.org/family/PF16179.3", "type": "pfama", "display": "true", "metadata": {"end": 460, "description": "The Rel homology domain (RHD) is composed of two structural domains, an N-terminal DNA_binding domain (Pfam:PF00554) and a C-terminal dimerisation domain. This is the dimerisation domain [1].", "database": "PfamA", "aliStart": 361, "scoreName": "E-value", "accession": "PF16179.3", "start": 360, "score": 1.3e-25, "identifier": "Rel homology dimerisation domain", "type": "DBD", "aliEnd": 458}}, {"startStyle": "jagged", "end": 456, "endStyle": "straight", "aliStart": 368, "text": "TIG", "colour": "#9999ff", "aliEnd": 456, "start": 359, "href": "http://pfam.xfam.org/family/PF01833.22", "type": "pfama", "display": "true", "metadata": {"end": 456, "description": "This family consists of a domain that has an immunoglobulin like fold. These domains are found in cell surface receptors such as Met and Ron as well as in intracellular transcription factors where it is involved in DNA binding. CAUTION: This family does not currently recognise a significant number of members.", "database": "PfamA", "aliStart": 368, "scoreName": "E-value", "accession": "PF01833.22", "start": 359, "score": 2.9e-07, "identifier": "IPT/TIG domain", "type": "DBD", "aliEnd": 456}}], "length": 703}

TF Info Page for NFATC2 (Rel)