The Human Transcription Factors

Conclusion

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

Description

Description:	GATA binding protein 5 [Source:HGNC Symbol;Acc:HGNC:15802]
Entrez Summary	TBA
Ensembl ID:	ENSG00000130700
External Link:
Interpro	IPR000679; IPR008013; IPR016375; ;
Protein Domain:
Protein: ENSP00000252997	DBD: GATA	Other: GATA-N

Previous Annotations

Source	Annotation
TF-CAT classification	TF Gene_DNA-Binding sequence-specific_DNA Binding Transactivation_ PMIDS:10212267 11408257
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:0001228 RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor IBA - GO_REF:0000033 GO:0003700 sequence-specific DNA binding transcription factor activity IDA - PMID:14986113 GO:0003705 RNA polymerase II distal enhancer 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
HT-SELEX	Jolma2013		Direct
HT-SELEX	Yin2017		Direct
HT-SELEX	Yin2017		Direct
HT-SELEX	Yin2017		Direct
HT-SELEX	Yin2017		Direct
Methyl-HT-SELEX	Yin2017		Direct
Methyl-HT-SELEX	Yin2017		Direct
Methyl-HT-SELEX	Yin2017		Direct
Methyl-HT-SELEX	Yin2017		Direct
Misc	HocoMoco		Direct
PBM	Badis09		Inferred - Gata5 (95% AA Identity, Mus musculus)
Transfac	Transfac	License required	Inferred - Gata5 (95% AA Identity, Mus musculus)
HT-SELEX	Yin2017		Inferred - GATA4 (91% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - GATA4 (91% AA Identity, Homo sapiens)
PBM	DREAM_contest		Inferred - Gata4 (91% AA Identity, Mus musculus)
Transfac	Transfac	License required	Inferred - GATA4 (91% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - GATA4 (91% AA Identity, Homo sapiens)
ChIP-seq	JASPAR		Inferred - Gata4 (91% AA Identity, Mus musculus)
Misc	HocoMoco		Inferred - GATA4 (91% AA Identity, Homo sapiens)
Misc	HOMER		Inferred - Gata4 (91% AA Identity, Mus musculus)
HT-SELEX	Yin2017		Inferred - GATA6 (87% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - GATA6 (87% AA Identity, Homo sapiens)
PBM	Badis09		Inferred - Gata6 (87% AA Identity, Mus musculus)
HT-SELEX	Nitta2015		Inferred - pnr (87% AA Identity, Drosophila melanogaster)
HT-SELEX	Nitta2015		Inferred - pnr (87% AA Identity, Drosophila melanogaster)
Transfac	Transfac	License required	Inferred - GATA6 (87% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - GATA6 (87% AA Identity, Homo sapiens)
ChIP-chip	JASPAR		Inferred - pnr (87% AA Identity, Drosophila melanogaster)
ChIP-seq	modENCODE		Inferred - pnr (87% AA Identity, Drosophila melanogaster)
Misc	HocoMoco		Inferred - GATA6 (87% AA Identity, Homo sapiens)
HT-SELEX	Nitta2015		Inferred - grn (84% AA Identity, Drosophila melanogaster)
HT-SELEX	Nitta2015		Inferred - grn (84% AA Identity, Drosophila melanogaster)
HT-SELEX	Nitta2015		Inferred - grn (84% AA Identity, Drosophila melanogaster)
HT-SELEX	Nitta2015		Inferred - srp (84% AA Identity, Drosophila melanogaster)
HT-SELEX	Nitta2015		Inferred - srp (84% AA Identity, Drosophila melanogaster)
Misc	iDMMPMM		Inferred - srp (84% AA Identity, Drosophila melanogaster)
HT-SELEX	Yin2017		Inferred - GATA2 (82% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - GATA2 (82% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - GATA3 (82% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - GATA3 (82% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - GATA3 (82% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - GATA3 (82% AA Identity, Homo sapiens)
PBM	Badis09		Inferred - Gata3 (82% AA Identity, Mus musculus)
SMiLE-seq	Isakova2017		Inferred - Gata3 (82% AA Identity, Mus musculus)
ChIP-seq	JASPAR		Inferred - Gata1 (82% AA Identity, Mus musculus)
ChIP-seq	ENCODE		Inferred - GATA2 (82% AA Identity, Homo sapiens)
ChIP-seq	ENCODE		Inferred - GATA2 (82% AA Identity, Homo sapiens)
ChIP-seq	ENCODE		Inferred - GATA2 (82% AA Identity, Homo sapiens)
ChIP-seq	ENCODE		Inferred - GATA2 (82% AA Identity, Homo sapiens)
ChIP-seq	ENCODE		Inferred - GATA2 (82% AA Identity, Homo sapiens)
ChIP-seq	JASPAR		Inferred - GATA2 (82% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - GATA2 (82% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - GATA2 (82% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - GATA2 (82% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - GATA2 (82% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - GATA2 (82% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - GATA2 (82% AA Identity, Homo sapiens)
ChIP-seq	ENCODE		Inferred - GATA3 (82% AA Identity, Homo sapiens)
ChIP-seq	JASPAR		Inferred - GATA3 (82% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - GATA3 (82% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - GATA3 (82% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - GATA3 (82% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - GATA3 (82% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - GATA3 (82% AA Identity, Homo sapiens)
Misc	HocoMoco		Inferred - GATA2 (82% AA Identity, Homo sapiens)
Misc	HOMER		Inferred - GATA2 (82% AA Identity, Homo sapiens)
Misc	HocoMoco		Inferred - GATA3 (82% AA Identity, Homo sapiens)
Misc	HOMER		Inferred - Gata3 (82% AA Identity, Mus musculus)
Misc	HOMER		Inferred - Gata3 (82% AA Identity, Mus musculus)
Misc	HOMER		Inferred - Gata3 (82% AA Identity, Mus musculus)
Misc	HOMER		Inferred - Gata3 (82% AA Identity, Mus musculus)
Misc	HOMER		Inferred - Gata3 (82% AA Identity, Mus musculus)
HT-SELEX	Jolma2010		Inferred - GATA1 (81% AA Identity, Homo sapiens)
HT-SELEX	Jolma2010		Inferred - GATA1 (81% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - GATA1 (81% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - GATA1 (81% AA Identity, Homo sapiens)
ChIP-seq	ENCODE		Inferred - GATA1 (81% AA Identity, Homo sapiens)
ChIP-seq	ENCODE		Inferred - GATA1 (81% AA Identity, Homo sapiens)
ChIP-seq	modENCODE		Inferred - GATA1 (81% AA Identity, Homo sapiens)
ChIP-seq	modENCODE		Inferred - GATA1 (81% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - GATA1 (81% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - GATA1 (81% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - GATA1 (81% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - GATA1 (81% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - GATA1 (81% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - GATA1 (81% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - GATA1 (81% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - GATA1 (81% AA Identity, Homo sapiens)
Misc	HocoMoco		Inferred - GATA1 (81% AA Identity, Homo sapiens)
Misc	HOMER		Inferred - GATA1 (81% AA Identity, Homo sapiens)
ChIP-seq	modENCODE		Inferred - elt-1 (74% AA Identity, Caenorhabditis elegans)
ChIP-seq	modENCODE		Inferred - elt-1 (74% AA Identity, Caenorhabditis elegans)

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": 223, "endStyle": "curved", "aliStart": 189, "text": "GATA", "colour": "#2cb42c", "aliEnd": 222, "start": 189, "href": "http://pfam.xfam.org/family/PF00320.25", "type": "pfama", "display": "true", "metadata": {"end": 223, "description": "This domain uses four cysteine residues to coordinate a zinc ion. This domain binds to DNA. Two GATA zinc fingers are found in the GATA transcription factors.  However there are several proteins which only contain a single copy of the domain.", "database": "PfamA", "aliStart": 189, "scoreName": "E-value", "accession": "PF00320.25", "start": 189, "score": 1.2e-29, "identifier": "GATA zinc finger", "type": "DBD", "aliEnd": 222}}, {"startStyle": "curved", "end": 277, "endStyle": "curved", "aliStart": 243, "text": "GATA", "colour": "#2cb42c", "aliEnd": 276, "start": 243, "href": "http://pfam.xfam.org/family/PF00320.25", "type": "pfama", "display": "true", "metadata": {"end": 277, "description": "This domain uses four cysteine residues to coordinate a zinc ion. This domain binds to DNA. Two GATA zinc fingers are found in the GATA transcription factors.  However there are several proteins which only contain a single copy of the domain.", "database": "PfamA", "aliStart": 243, "scoreName": "E-value", "accession": "PF00320.25", "start": 243, "score": 1.2e-29, "identifier": "GATA zinc finger", "type": "DBD", "aliEnd": 276}}, {"startStyle": "straight", "end": 176, "endStyle": "straight", "aliStart": 1, "text": "GATA-N", "colour": "#9999ff", "aliEnd": 172, "start": 1, "href": "http://pfam.xfam.org/family/PF05349.10", "type": "pfama", "display": "true", "metadata": {"end": 176, "description": "GATA transcription factors mediate cell differentiation in a diverse range of tissues. Mutation are often associated with certain  congenital human disorders. The six classical vertebrate GATA proteins, GATA-1 to GATA-6, are highly homologous and have two tandem zinc fingers. The classical GATA transcription factors function transcription activators. In lower metazoans GATA proteins carry a single canonical  zinc finger. This family represents the N-terminal domain of the family of  GATA transcription activators.", "database": "PfamA", "aliStart": 1, "scoreName": "E-value", "accession": "PF05349.10", "start": 1, "score": 1.9999999999999997e-51, "identifier": "GATA-type transcription activator, N-terminal ", "type": "DBD", "aliEnd": 172}}], "length": 398}

TF Info Page for GATA5 (GATA)