The Human Transcription Factors

Conclusion

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

Description

Description:	paired box 2 [Source:HGNC Symbol;Acc:HGNC:8616]
Entrez Summary	TBA
Ensembl ID:	ENSG00000075891
External Link:	T104404_1.02
Interpro	IPR001523; IPR009057; IPR022130; ;
Protein Domain:
Protein: ENSP00000347385	DBD: Homeodomain,Paired box	Other: Pax2_C
Protein: ENSP00000359319	DBD: Homeodomain,Paired box	Other: Pax2_C
Protein: ENSP00000452489	DBD: Homeodomain,Paired box	Other:
Protein: ENSP00000355069	DBD: Homeodomain,Paired box	Other: Pax2_C
Protein: ENSP00000398652	DBD: Homeodomain,Paired box	Other:

Previous Annotations

Source	Annotation
TF-CAT classification	TF Gene_DNA-Binding sequence-specific_Transactivation_ PMIDS:11700324 11731455 14561758 12756174
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
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
Methyl-HT-SELEX	Yin2017		Direct
Transfac	Transfac	License required	Direct
Transfac	Transfac	License required	Direct
Transfac	Transfac	License required	Direct
Misc	HocoMoco		Direct
Misc	HocoMoco		Direct
PBM	Zoo_01		Inferred - pax2 (100% AA Identity, Xenopus tropicalis)
PBM	Zoo_01		Inferred - pax2b (99% AA Identity, Danio rerio)
SELEX	JASPAR		Inferred - Pax2 (99% AA Identity, Mus musculus)
PBM	TF_Evolution	Unpublished Data	Inferred - Pax5 (97% AA Identity, Gallus gallus)
ChIP-seq	ENCODE		Inferred - PAX5 (97% AA Identity, Homo sapiens)
ChIP-seq	ENCODE		Inferred - PAX5 (97% AA Identity, Homo sapiens)
ChIP-seq	ENCODE		Inferred - PAX5 (97% AA Identity, Homo sapiens)
ChIP-seq	ENCODE		Inferred - PAX5 (97% AA Identity, Homo sapiens)
ChIP-seq	JASPAR		Inferred - PAX5 (97% AA Identity, Homo sapiens)
ChIP-seq	modENCODE		Inferred - PAX5 (97% AA Identity, Homo sapiens)
ChIP-seq	modENCODE		Inferred - PAX5 (97% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - PAX5 (97% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - PAX5 (97% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - PAX5 (97% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - PAX5 (97% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - PAX5 (97% AA Identity, Homo sapiens)
Misc	HocoMoco		Inferred - PAX5 (97% AA Identity, Homo sapiens)
Misc	HocoMoco		Inferred - PAX5 (97% AA Identity, Homo sapiens)
Misc	HOMER		Inferred - PAX5 (97% AA Identity, Homo sapiens)
Misc	HOMER		Inferred - PAX5 (97% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - PAX8 (92% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - PAX8 (92% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - PAX8 (92% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - PAX8 (92% AA Identity, Homo sapiens)
Misc	HocoMoco		Inferred - PAX8 (92% AA Identity, Homo sapiens)
Misc	HOMER		Inferred - Pax8 (92% AA Identity, Rattus norvegicus)
HT-SELEX	Nitta2015		Inferred - sv (88% AA Identity, Drosophila melanogaster)
PBM	TF_Evolution	Unpublished Data	Inferred - sv (88% AA Identity, Drosophila melanogaster)
PBM	Zoo_01		Inferred - egl-38 (71% AA Identity, Caenorhabditis elegans)
PBM	CEPD		Inferred - pax-2 (71% 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

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TF Info Page for PAX2 (Homeodomain; Paired box)