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:	F-box and leucine rich repeat protein 19 [Source:HGNC Symbol;Acc:HGNC:25300]
Entrez Summary	TBA
Ensembl ID:	ENSG00000099364
External Link:
Interpro	IPR001611; IPR001810; IPR001965; IPR002857; IPR006553; IPR011011; IPR019786; IPR019787;
Protein Domain:
Protein: ENSP00000397913	DBD: CxxC	Other: F-box, F-box-like, LRR_4, LRR_6, LRR_8, PHD, PHD_4
Protein: ENSP00000369666	DBD: CxxC	Other: F-box, F-box-like, LRR_4, LRR_6, LRR_8, PHD, PHD_4
Protein: ENSP00000458033	DBD: CxxC	Other: F-box, F-box-like, LRR_1, LRR_4, LRR_6, LRR_8
Protein: ENSP00000455529	DBD: CxxC	Other: F-box, F-box-like, LRR_4, LRR_6, LRR_8, PHD, PHD_4
Protein: ENSP00000457199	DBD: CxxC	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.	No
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	5a, one of the source datasets predicts is 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

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Leucine Rich Repeats are short sequence motifs present in a number of proteins with diverse functions and cellular locations.  These repeats are usually involved in protein-protein interactions. Each Leucine Rich Repeat is composed of a beta-alpha unit. These units form elongated non-globular structures. Leucine Rich Repeats are often flanked by cysteine rich domains.", "database": "PfamA", "aliStart": 341, "scoreName": "E-value", "accession": "PF00560.31", "start": 341, "score": 0.0052, "identifier": "Leucine Rich Repeat", "type": "DBD", "aliEnd": 358}}], "length": 383}

{"regions": [{"startStyle": "curved", "end": 57, "endStyle": "curved", "aliStart": 13, "text": "zfCXXC", "colour": "#009900", "aliEnd": 57, "start": 11, "href": "http://pfam.xfam.org/family/PF02008.18", "type": "pfama", "display": "true", "metadata": {"end": 57, "description": "This domain contains eight conserved cysteine residues that bind to two zinc ions.  The CXXC domain is found in a variety of chromatin-associated proteins. This domain binds to nonmethyl-CpG dinucleotides. The domain is characterised by two repeats [3], and shows a peculiar internal duplication in which the second unit is inserted into the first one [4]. Each of these units is  characterised by four conserved cysteines, displaying a CXXCXXCX(n)C motif that chelate a Zn+2 ion. The DNA binding interface has been  identified by NMR [3]. In eukaryotes, the CXXC domain is found in stramenopiles, plants and metazoans. Plants possess  a mono-CXXC domain that is present in distinct chromatin proteins  [4]. Structural comparisons show that the mono-CXXC is homologous  to the structural-zinc binding domain of medium chain  dehydrogenases [4].", "database": "PfamA", "aliStart": 13, "scoreName": "E-value", "accession": "PF02008.18", "start": 11, "score": 9.4e-14, "identifier": "CXXC zinc finger domain", "type": "DBD", "aliEnd": 57}}, {"startStyle": "straight", "end": 129, "endStyle": "straight", "aliStart": 62, "text": "PHD_4", "colour": "#9999ff", "aliEnd": 129, "start": 62, "href": "http://pfam.xfam.org/family/PF16866.3", "type": "pfama", "display": "true", "metadata": {"end": 129, "description": NaN, "database": "PfamA", "aliStart": 62, "scoreName": "E-value", "accession": "PF16866.3", "start": 62, "score": 1.3e-25, "identifier": "PHD-finger", "type": "DBD", "aliEnd": 129}}, {"startStyle": "jagged", "end": 446, "endStyle": "straight", "aliStart": 404, "text": "F-box", "colour": "#9999ff", "aliEnd": 443, "start": 403, "href": "http://pfam.xfam.org/family/PF00646.31", "type": "pfama", "display": "true", "metadata": {"end": 446, "description": "This domain is approximately 50 amino acids long, and is usually found in the N-terminal half of a variety of proteins. Two motifs that are commonly found associated with the F-box domain are the leucine rich repeats (LRRs; Pfam:PF00560 and Pfam:PF07723) and the WD repeat (Pfam:PF00400). The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression [3].", "database": "PfamA", "aliStart": 404, "scoreName": "E-value", "accession": "PF00646.31", "start": 403, "score": 1.8e-09, "identifier": "F-box domain", "type": "DBD", "aliEnd": 443}}, {"startStyle": "straight", "end": 447, "endStyle": "straight", "aliStart": 404, "text": "F-box-like", "colour": "#9999ff", "aliEnd": 446, "start": 402, "href": "http://pfam.xfam.org/family/PF12937.5", "type": "pfama", "display": "true", "metadata": {"end": 447, "description": "This is an F-box-like family.", "database": "PfamA", "aliStart": 404, "scoreName": "E-value", "accession": "PF12937.5", "start": 402, "score": 3.2e-06, "identifier": "F-box-like", "type": "DBD", "aliEnd": 446}}, {"startStyle": "straight", "end": 532, "endStyle": "jagged", "aliStart": 489, "text": "LRR_4", "colour": "#9999ff", "aliEnd": 524, "start": 488, "href": "http://pfam.xfam.org/family/PF12799.5", "type": "pfama", "display": "true", "metadata": {"end": 532, "description": "Leucine rich repeats are short sequence motifs present in a number of proteins with diverse functions and cellular locations. These repeats are usually involved in protein-protein interactions.  Each Leucine Rich Repeat is composed of a beta-alpha unit. These units form elongated non-globular structures. Leucine Rich Repeats are often flanked by cysteine rich domains.", "database": "PfamA", "aliStart": 489, "scoreName": "E-value", "accession": "PF12799.5", "start": 488, "score": 4e-05, "identifier": "Leucine Rich repeats (2 copies)", "type": "DBD", "aliEnd": 524}}, {"startStyle": "straight", "end": 648, "endStyle": "jagged", "aliStart": 609, "text": "LRR_4", "colour": "#9999ff", "aliEnd": 645, "start": 607, "href": "http://pfam.xfam.org/family/PF12799.5", "type": "pfama", "display": "true", "metadata": {"end": 648, "description": "Leucine rich repeats are short sequence motifs present in a number of proteins with diverse functions and cellular locations. These repeats are usually involved in protein-protein interactions.  Each Leucine Rich Repeat is composed of a beta-alpha unit. These units form elongated non-globular structures. Leucine Rich Repeats are often flanked by cysteine rich domains.", "database": "PfamA", "aliStart": 609, "scoreName": "E-value", "accession": "PF12799.5", "start": 607, "score": 4e-05, "identifier": "Leucine Rich repeats (2 copies)", "type": "DBD", "aliEnd": 645}}, {"startStyle": "jagged", "end": 598, "endStyle": "jagged", "aliStart": 578, "text": "LRR_6", "colour": "#9999ff", "aliEnd": 594, "start": 575, "href": "http://pfam.xfam.org/family/PF13516.4", "type": "pfama", "display": "true", "metadata": {"end": 598, "description": NaN, "database": "PfamA", "aliStart": 578, "scoreName": "E-value", "accession": "PF13516.4", "start": 575, "score": 5e-05, "identifier": "Leucine Rich repeat", "type": "DBD", "aliEnd": 594}}, {"startStyle": "straight", "end": 654, "endStyle": "jagged", "aliStart": 631, "text": "LRR_6", "colour": "#9999ff", "aliEnd": 648, "start": 630, "href": "http://pfam.xfam.org/family/PF13516.4", "type": "pfama", "display": "true", "metadata": {"end": 654, "description": NaN, "database": "PfamA", "aliStart": 631, "scoreName": "E-value", "accession": "PF13516.4", "start": 630, "score": 5e-05, "identifier": "Leucine Rich repeat", "type": "DBD", "aliEnd": 648}}, {"startStyle": "straight", "end": 131, "endStyle": "straight", "aliStart": 68, "text": "PHD", "colour": "#9999ff", "aliEnd": 130, "start": 67, "href": "http://pfam.xfam.org/family/PF00628.27", "type": "pfama", "display": "true", "metadata": {"end": 131, "description": "PHD folds into an interleaved type of Zn-finger chelating 2 Zn ions in a similar manner to that of the RING and FYVE domains [2].  Several PHD fingers have been identified as binding modules of methylated histone H3 [3].", "database": "PfamA", "aliStart": 68, "scoreName": "E-value", "accession": "PF00628.27", "start": 67, "score": 0.0014, "identifier": "PHD-finger", "type": "DBD", "aliEnd": 130}}, {"startStyle": "jagged", "end": 521, "endStyle": "straight", "aliStart": 485, "text": "LRR_8", "colour": "#9999ff", "aliEnd": 520, "start": 481, "href": "http://pfam.xfam.org/family/PF13855.4", "type": "pfama", "display": "true", "metadata": {"end": 521, "description": NaN, "database": "PfamA", "aliStart": 485, "scoreName": "E-value", "accession": "PF13855.4", "start": 481, "score": 0.0025, "identifier": "Leucine rich repeat", "type": "DBD", "aliEnd": 520}}, {"startStyle": "straight", "end": 655, "endStyle": "jagged", "aliStart": 608, "text": "LRR_8", "colour": "#9999ff", "aliEnd": 654, "start": 607, "href": "http://pfam.xfam.org/family/PF13855.4", "type": "pfama", "display": "true", "metadata": {"end": 655, "description": NaN, "database": "PfamA", "aliStart": 608, "scoreName": "E-value", "accession": "PF13855.4", "start": 607, "score": 0.0025, "identifier": "Leucine rich repeat", "type": "DBD", "aliEnd": 654}}], "length": 675}

TF Info Page for FBXL19 (CxxC)