The Human Transcription Factors

Conclusion

Assessment	Binding Mode	Motif Status	Notes	Comments
Inferred motif	3 Low specificity DNA-binding protein	In vivo/Misc source		SATBs were analyzed by Gwenael Badis and Mike Berger a decade ago; by PBMs. It did not yield a motif; instead; the signal was very closely proportional to nucleotide content, as the name suggests (Special AT Binding).

Description

Description:	SATB homeobox 2 [Source:HGNC Symbol;Acc:HGNC:21637]
Entrez Summary	TBA
Ensembl ID:	ENSG00000119042
External Link:
Interpro	IPR001356; IPR003350; IPR009057; IPR010982;
Protein Domain:
Protein: ENSP00000260926	DBD: CUT, Homeodomain	Other: CUTL, ULD
Protein: ENSP00000388581	DBD: CUT, Homeodomain	Other: ULD
Protein: ENSP00000401112	DBD: CUT, Homeodomain	Other: CUTL, ULD
Protein: ENSP00000405420	DBD: CUT, Homeodomain	Other: CUTL, ULD

Previous Annotations

Source	Annotation
TF-CAT classification	TF Gene Candidate_DNA-Binding sequence-specific_DNA Binding_ PMIDS:14701874
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	2a2, orthologous lower confidence evidence
TF has conditional DNA-binding requirements

DNA-Binding

Published Motif Data

Source	Annotation	Motif	Evidence
Transfac	Transfac	License required	Inferred - SATB1 (84% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - SATB1 (84% AA Identity, Homo sapiens)

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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{"regions": [{"startStyle": "curved", "end": 316, "endStyle": "curved", "aliStart": 238, "text": "CUT", "colour": "#2cb42c", "aliEnd": 316, "start": 237, "href": "http://pfam.xfam.org/family/PF02376.13", "type": "pfama", "display": "true", "metadata": {"end": 316, "description": "The CUT domain is a DNA-binding motif which can bind independently or in cooperation with the homeodomain, often found downstream of the CUT domain. ", "database": "PfamA", "aliStart": 238, "scoreName": "E-value", "accession": "PF02376.13", "start": 237, "score": 1.5e-48, "identifier": "CUT domain", "type": "DBD", "aliEnd": 316}}, {"startStyle": "curved", "end": 439, "endStyle": "curved", "aliStart": 364, "text": "CUT", "colour": "#2cb42c", "aliEnd": 438, "start": 361, "href": "http://pfam.xfam.org/family/PF02376.13", "type": "pfama", "display": "true", "metadata": {"end": 439, "description": "The CUT domain is a DNA-binding motif which can bind independently or in cooperation with the homeodomain, often found downstream of the CUT domain. ", "database": "PfamA", "aliStart": 364, "scoreName": "E-value", "accession": "PF02376.13", "start": 361, "score": 1.5e-48, "identifier": "CUT domain", "type": "DBD", "aliEnd": 438}}, {"startStyle": "curved", "end": 554, "endStyle": "curved", "aliStart": 498, "text": "HD", "colour": "#228B22", "aliEnd": 553, "start": 497, "href": "http://pfam.xfam.org/family/PF00046.27", "type": "pfama", "display": "true", "metadata": {"end": 554, "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": 498, "scoreName": "E-value", "accession": "PF00046.27", "start": 497, "score": 2.4e-07, "identifier": "Homeobox domain", "type": "DBD", "aliEnd": 553}}, {"startStyle": "straight", "end": 118, "endStyle": "jagged", "aliStart": 59, "text": "ULD", "colour": "#9999ff", "aliEnd": 115, "start": 58, "href": "http://pfam.xfam.org/family/PF16534.3", "type": "pfama", "display": "true", "metadata": {"end": 118, "description": "ULD is an N-terminal oligomerisation domain of SATB or special AT-rich sequence-binding proteins.  SATBs are global chromatin organisers and regulators of gene expression that are essential for T-cell development, breast cancer tumour growth and metastasis. SATBs assemble into a tetramer via the ULD domain, and the tetramerisation of SATBs are essential for recognising specific DNA sequences (such as multiple AT-rich DNA fragments). Thus, SATBs may regulate gene expression directly by binding to various promoters and upstream regions and thereby influencing promoter activity [1].", "database": "PfamA", "aliStart": 59, "scoreName": "E-value", "accession": "PF16534.3", "start": 58, "score": 7.6e-15, "identifier": "Ubiquitin-like oligomerisation domain of SATB", "type": "DBD", "aliEnd": 115}}], "length": 616}

TF Info Page for SATB2 (CUT; Homeodomain)