The Human Transcription Factors

Conclusion

Assessment	Binding Mode	Motif Status	Notes	Comments
Likely to be sequence specific TF	1 Monomer or homomultimer	No motif

Description

Description:	pogo transposable element with KRAB domain [Source:HGNC Symbol;Acc:HGNC:18800]
Entrez Summary	TBA
Ensembl ID:	ENSG00000143157
External Link:
Interpro	IPR001909; IPR004875; IPR006600; IPR009057; IPR018586; ;
Protein Domain:
Protein: ENSP00000356850	DBD: Brinker	Other: DDE_1, HTH_Tnp_Tc5, KRAB
Protein: ENSP00000404402	DBD: Brinker	Other: KRAB
Protein: ENSP00000356849	DBD: Brinker	Other: DDE_1, HTH_Tnp_Tc5, KRAB

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.	x
CisBP considers it as a TF?	Yes
TFclass considers it as a TF?	No
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	4a, two or more datasets predict it as a TF
TF has conditional DNA-binding requirements

DNA-Binding

Published Motif Data

Source	Annotation	Motif	Evidence

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": 247, "endStyle": "curved", "aliStart": 195, "text": "BrkDBD", "colour": "#228B22", "aliEnd": 247, "start": 195, "href": "http://pfam.xfam.org/family/PF09607.8", "type": "pfama", "display": "true", "metadata": {"end": 247, "description": "This DNA-binding domain is the first approx. 100 residues of the N-terminal end of Brinker. The structure of this domain in complex with DNA consists of four alpha-helices that contain a helix-turn-helix DNA recognition motif specific for GC-rich DNA. The Brinker nuclear repressor is a major element of the Drosophila Decapentaplegic morphogen signalling pathway [1].", "database": "PfamA", "aliStart": 195, "scoreName": "E-value", "accession": "PF09607.8", "start": 195, "score": 7.9e-26, "identifier": "Brinker DNA-binding domain", "type": "DBD", "aliEnd": 247}}, {"startStyle": "straight", "end": 567, "endStyle": "straight", "aliStart": 396, "text": "DDE_1", "colour": "#9999ff", "aliEnd": 567, "start": 395, "href": "http://pfam.xfam.org/family/PF03184.17", "type": "pfama", "display": "true", "metadata": {"end": 567, "description": "This family of proteins are related to Pfam:PF00665 and are probably endonucleases of the DDE superfamily. Transposase proteins are necessary for efficient DNA transposition. This domain is a member of the DDE superfamily, which contain three carboxylate residues that are believed to be responsible for coordinating metal ions needed for catalysis. The catalytic activity of this enzyme involves DNA cleavage at a specific site followed by a strand transfer reaction. Interestingly this family also includes the CENP-B protein. This domain in that protein appears to have lost the metal binding residues and is unlikely to have endonuclease activity. Centromere Protein B (CENP-B) is a DNA-binding protein localised to the centromere.", "database": "PfamA", "aliStart": 396, "scoreName": "E-value", "accession": "PF03184.17", "start": 395, "score": 2.6000000000000003e-44, "identifier": "DDE superfamily endonuclease", "type": "DBD", "aliEnd": 567}}, {"startStyle": "straight", "end": 87, "endStyle": "straight", "aliStart": 49, "text": "KRAB", "colour": "#9999ff", "aliEnd": 86, "start": 46, "href": "http://pfam.xfam.org/family/PF01352.25", "type": "pfama", "display": "true", "metadata": {"end": 87, "description": "The KRAB domain (or Kruppel-associated box) is present in about a third of zinc finger proteins containing C2H2 fingers.  The KRAB domain is found to be involved in protein-protein interactions [2,3].  The KRAB domain is generally encoded by two exons.  The regions coded by the two exons are known as KRAB-A and KRAB-B. The A box plays an important role in repression by binding to corepressors, while the B box is thought to enhance this repression brought about by the A box. KRAB-containing proteins are thought to have critical functions in cell proliferation and differentiation, apoptosis and neoplastic transformation [4].", "database": "PfamA", "aliStart": 49, "scoreName": "E-value", "accession": "PF01352.25", "start": 46, "score": 4e-16, "identifier": "KRAB box", "type": "DBD", "aliEnd": 86}}, {"startStyle": "straight", "end": 323, "endStyle": "straight", "aliStart": 260, "text": "HTH_Tnp_Tc5", "colour": "#9999ff", "aliEnd": 322, "start": 259, "href": "http://pfam.xfam.org/family/PF03221.14", "type": "pfama", "display": "true", "metadata": {"end": 323, "description": NaN, "database": "PfamA", "aliStart": 260, "scoreName": "E-value", "accession": "PF03221.14", "start": 259, "score": 1.3e-13, "identifier": "Tc5 transposase DNA-binding domain", "type": "DBD", "aliEnd": 322}}], "length": 610}

{"regions": [{"startStyle": "curved", "end": 209, "endStyle": "jagged", "aliStart": 195, "text": "BrkDBD", "colour": "#228B22", "aliEnd": 209, "start": 195, "href": "http://pfam.xfam.org/family/PF09607.8", "type": "pfama", "display": "true", "metadata": {"end": 209, "description": "This DNA-binding domain is the first approx. 100 residues of the N-terminal end of Brinker. The structure of this domain in complex with DNA consists of four alpha-helices that contain a helix-turn-helix DNA recognition motif specific for GC-rich DNA. The Brinker nuclear repressor is a major element of the Drosophila Decapentaplegic morphogen signalling pathway [1].", "database": "PfamA", "aliStart": 195, "scoreName": "E-value", "accession": "PF09607.8", "start": 195, "score": 0.0035, "identifier": "Brinker DNA-binding domain", "type": "DBD", "aliEnd": 209}}, {"startStyle": "straight", "end": 87, "endStyle": "straight", "aliStart": 49, "text": "KRAB", "colour": "#9999ff", "aliEnd": 86, "start": 46, "href": "http://pfam.xfam.org/family/PF01352.25", "type": "pfama", "display": "true", "metadata": {"end": 87, "description": "The KRAB domain (or Kruppel-associated box) is present in about a third of zinc finger proteins containing C2H2 fingers.  The KRAB domain is found to be involved in protein-protein interactions [2,3].  The KRAB domain is generally encoded by two exons.  The regions coded by the two exons are known as KRAB-A and KRAB-B. The A box plays an important role in repression by binding to corepressors, while the B box is thought to enhance this repression brought about by the A box. KRAB-containing proteins are thought to have critical functions in cell proliferation and differentiation, apoptosis and neoplastic transformation [4].", "database": "PfamA", "aliStart": 49, "scoreName": "E-value", "accession": "PF01352.25", "start": 46, "score": 1.8999999999999998e-16, "identifier": "KRAB box", "type": "DBD", "aliEnd": 86}}], "length": 209}

TF Info Page for POGK (Brinker)