The Human Transcription Factors

Conclusion

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

Description

Description:

POU class 3 homeobox 4 [Source:HGNC Symbol;Acc:HGNC:9217]

Entrez Summary

This gene encodes a member of the POU-III class of neural transcription factors. This family member plays a role in inner ear development. The protein is thought to be involved in the mediation of epigenetic signals which induce striatal neuron-precursor differentiation. Mutations in this gene are associated with X chromosome-linked nonsyndromic mixed deafness. [provided by RefSeq, Dec 2012]

Ensembl ID:

ENSG00000196767

External Link:

CisBP

Interpro

IPR000327; IPR001356; IPR009057; IPR010982; IPR013847; IPR016362; IPR017970; ;

Protein Domain:

ENSP00000362296

Domain:

Protein: ENSP00000362296	DBD: Homeodomain,POU	Other:

Previous Annotations

Source	Annotation
TF-CAT classification	No PMIDS:
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
PBM	Barrera2016		Direct
PBM	Barrera2016		Direct
PBM	Barrera2016		Direct
HT-SELEX	Jolma2013		Direct
HT-SELEX	Jolma2013		Direct
HT-SELEX	Yin2017		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
PBM	Berger08		Inferred - Pou3f4 (100% AA Identity, Mus musculus)
PBM	Zoo_01		Inferred - AAH72060 (96% AA Identity, Xenopus laevis)
HT-SELEX	Yin2017		Inferred - POU3F2 (96% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - POU3F2 (96% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - POU3F2 (96% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - POU3F2 (96% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - POU3F2 (96% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - POU3F2 (96% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - POU3F2 (96% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - POU3F2 (96% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - POU3F2 (96% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - POU3F2 (96% AA Identity, Homo sapiens)
PBM	Berger08		Inferred - Pou3f2 (96% AA Identity, Mus musculus)
Transfac	Transfac	License required	Inferred - POU3F2 (96% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - POU3F2 (96% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - POU3F2 (96% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - POU3F2 (96% AA Identity, Homo sapiens)
Misc	HocoMoco		Inferred - POU3F2 (96% AA Identity, Homo sapiens)
PBM	Zoo_01		Inferred - D2GWY1_AILME (95% AA Identity, Ailuropoda melanoleuca)
PBM	Zoo_01		Inferred - pou3f2a (95% AA Identity, Takifugu rubripes)
Transfac	Transfac	License required	Inferred - POU3F3 (95% AA Identity, Homo sapiens)
PBM	Berger08		Inferred - Pou3f3 (94% AA Identity, Mus musculus)
PBM	Zoo_01		Inferred - pou3f3b (94% AA Identity, Danio rerio)
HT-SELEX	Nitta2015		Inferred - vvl (93% AA Identity, Drosophila melanogaster)
Transfac	Transfac	License required	Inferred - SGF3_BOMMO (93% AA Identity, Bombyx mori)
DNaseI footprinting	JASPAR		Inferred - vvl (93% AA Identity, Drosophila melanogaster)
Transfac	Transfac	License required	Inferred - vvl (93% AA Identity, Drosophila melanogaster)
HT-SELEX	Yin2017		Inferred - POU3F1 (92% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - POU3F1 (92% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - POU3F1 (92% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - POU3F1 (92% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - POU3F1 (92% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - POU3F1 (92% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - POU3F1 (92% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - POU3F1 (92% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - POU3F1 (92% AA Identity, Homo sapiens)
PBM	Berger08		Inferred - Pou3f1 (92% AA Identity, Mus musculus)
PBM	DREAM_contest		Inferred - Pou3f1 (92% AA Identity, Mus musculus)
Transfac	Transfac	License required	Inferred - POU3F1 (92% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - POU3F1 (92% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - POU3F1 (92% AA Identity, Homo sapiens)
Misc	HocoMoco		Inferred - POU3F1 (92% AA Identity, Homo sapiens)
PBM	Zoo_01		Inferred - WUBG_18372 (84% AA Identity, Wuchereria bancrofti)
PBM	Zoo_01		Inferred - GB53100 (77% AA Identity, Apis mellifera)
PBM	Zoo_01		Inferred - NV11360 (77% AA Identity, Nasonia vitripennis)
B1H	JASPAR		Inferred - nub (75% AA Identity, Drosophila melanogaster)
HT-SELEX	Nitta2015		Inferred - nub (75% AA Identity, Drosophila melanogaster)
Misc	iDMMPMM		Inferred - nub (75% AA Identity, Drosophila melanogaster)
PBM	Zoo_01		Inferred - estExt_fgenesh2_pg.C_80253 (73% AA Identity, Branchiostoma floridae)
HT-SELEX	Nitta2015		Inferred - pdm2 (73% AA Identity, Drosophila melanogaster)
HT-SELEX	Nitta2015		Inferred - pdm2 (73% AA Identity, Drosophila melanogaster)
PBM	Berger06		Inferred - POU2F1 (72% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - POU2F3 (72% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - POU2F3 (72% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - POU2F3 (72% AA Identity, Homo sapiens)
PBM	Berger08		Inferred - Pou2f3 (72% AA Identity, Mus musculus)
PBM	Zoo_01		Inferred - pou2f3 (72% AA Identity, Takifugu rubripes)
SMiLE-seq	Isakova2017		Inferred - POU5F1 (72% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - POU5F1 (72% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - POU5F1 (72% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - POU5F1 (72% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - POU5F1 (72% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - ENSG00000230336 (72% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - ENSG00000230336 (72% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - ENSG00000230336 (72% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - POU2F1 (72% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - POU2F1 (72% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - POU2F1 (72% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - POU2F1 (72% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - POU2F1 (72% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - POU2F1 (72% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - POU2F1 (72% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - POU2F1 (72% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - POU2F1 (72% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - POU2F1 (72% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - POU2F1 (72% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - POU2F1 (72% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - POU2F1 (72% AA Identity, Homo sapiens)
ChIP-seq	ENCODE		Inferred - POU5F1 (72% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - POU5F1 (72% AA Identity, Homo sapiens)
ChIP-seq	hmCHIP		Inferred - Pou5f1 (72% AA Identity, Mus musculus)
ChIP-seq	hmCHIP		Inferred - Pou5f1 (72% AA Identity, Mus musculus)
ChIP-seq	hmCHIP		Inferred - Pou5f1 (72% AA Identity, Mus musculus)
Transfac	Transfac	License required	Inferred - Pou5f1 (72% AA Identity, Mus musculus)
Transfac	Transfac	License required	Inferred - Pou5f1 (72% AA Identity, Mus musculus)
Misc	HocoMoco		Inferred - POU2F1 (72% AA Identity, Homo sapiens)
Misc	HocoMoco		Inferred - POU5F1 (72% AA Identity, Homo sapiens)
HT-SELEX	Jolma2010		Inferred - POU2F2 (71% AA Identity, Homo sapiens)
HT-SELEX	Jolma2010		Inferred - POU2F2 (71% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - POU2F2 (71% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - POU2F2 (71% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - POU2F2 (71% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - POU2F2 (71% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - POU2F2 (71% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - POU2F2 (71% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - POU2F2 (71% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - POU2F2 (71% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - POU2F2 (71% AA Identity, Homo sapiens)
PBM	Berger08		Inferred - Pou2f2 (71% AA Identity, Mus musculus)
ChIP-seq	ENCODE		Inferred - POU2F2 (71% AA Identity, Homo sapiens)
ChIP-seq	ENCODE		Inferred - POU2F2 (71% AA Identity, Homo sapiens)
ChIP-seq	ENCODE		Inferred - POU2F2 (71% AA Identity, Homo sapiens)
ChIP-seq	ENCODE		Inferred - POU2F2 (71% AA Identity, Homo sapiens)
ChIP-seq	JASPAR		Inferred - POU2F2 (71% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - POU2F2 (71% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - POU2F2 (71% AA Identity, Homo sapiens)
Misc	HocoMoco		Inferred - POU2F2 (71% AA Identity, Homo sapiens)
Misc	HOMER		Inferred - Pou2f2 (71% AA Identity, Mus musculus)

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": 260, "endStyle": "curved", "aliStart": 191, "text": "Pou", "colour": "#2cb42c", "aliEnd": 260, "start": 189, "href": "http://pfam.xfam.org/family/PF00157.15", "type": "pfama", "display": "true", "metadata": {"end": 260, "description": "The POU domain is a bipartite domain composed of two subunits separated by a non-conserved region of 15-55 aa. The N-terminal subunit is known as the POU-specific (POUs) domain (INTERPRO), while the C-terminal subunit is a homeobox domain (INTERPRO). 3D structures of complexes including both POU subdomains bound to DNA are available. Both subdomains contain the structural motif 'helix-turn-helix', which directly associates with the two components of bipartite DNA binding sites, and both are required for high affinity sequence-specific DNA-binding.", "database": "PfamA", "aliStart": 191, "scoreName": "E-value", "accession": "PF00157.15", "start": 189, "score": 1.1e-38, "identifier": "Pou domain - N-terminal to homeobox domain", "type": "DBD", "aliEnd": 260}}, {"startStyle": "curved", "end": 335, "endStyle": "curved", "aliStart": 279, "text": "HD", "colour": "#228B22", "aliEnd": 335, "start": 279, "href": "http://pfam.xfam.org/family/PF00046.27", "type": "pfama", "display": "true", "metadata": {"end": 335, "description": "The homeobox domain or homeodomain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates [PUBMED:2568852, PUBMED:1357790]. Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies [PUBMED:12445403]. The domain binds DNA through a helix-turn-helix (HTH) structure. ", "database": "PfamA", "aliStart": 279, "scoreName": "E-value", "accession": "PF00046.27", "start": 279, "score": 2.3e-18, "identifier": "Homeobox domain", "type": "DBD", "aliEnd": 335}}], "length": 362}

TF Info Page for POU3F4 (Homeodomain; POU)