The Human Transcription Factors

Conclusion

Assessment	Binding Mode	Motif Status	Notes	Comments
Likely to be sequence specific TF	1 Monomer or homomultimer	No motif		Binds RRRGGAGGAGA based on SELEX and EMSA (PMID: 19644445).

Description

Description:	zinc finger CCCH-type and G-patch domain containing [Source:HGNC Symbol;Acc:HGNC:15948]
Entrez Summary	TBA
Ensembl ID:	ENSG00000197114
External Link:
Interpro	IPR000467; IPR000571;
Protein Domain:
Protein: ENSP00000348242	DBD: CCCH ZF	Other: G-patch, Laminin_I
Protein: ENSP00000349634	DBD: CCCH ZF	Other: G-patch, Laminin_I
Protein: ENSP00000391176	DBD: CCCH ZF	Other: G-patch, Laminin_I
Protein: ENSP00000332013	DBD: CCCH ZF	Other: G-patch, Laminin_I
Protein: ENSP00000403966	DBD: CCCH ZF	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.	x
CisBP considers it as a TF?	No
TFclass considers it as a TF?	Yes
Has GO:0003700 "transcription factor activity, sequence-specific DNA binding"	Yes
GO-Info	GO:0001078 RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor a IDA - PMID:19644445 GO:0003700 sequence-specific DNA binding transcription factor activity IDA - PMID:19644445
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

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{"regions": [{"startStyle": "jagged", "end": 200, "endStyle": "curved", "aliStart": 178, "text": "zfCCCH", "colour": "#2cb42c", "aliEnd": 200, "start": 175, "href": "http://pfam.xfam.org/family/PF00642.22", "type": "pfama", "display": "true", "metadata": {"end": 200, "description": "This entry represents C-x8-C-x5-C-x3-H (CCCH) type Zinc finger (Znf) domains. Proteins containing CCCH Znf domains include Znf proteins from eukaryotes involved in cell cycle or growth phase-related regulation, e.g. human TIS11B (butyrate response factor 1), a probable regulatory protein involved in regulating the response to growth factors, and the mouse TTP growth factor-inducible nuclear protein, which has the same function. The mouse TTP protein is induced by growth factors. Another protein containing this domain is the human splicing factor U2AF 35kDa subunit, which plays a critical role in both constitutive and enhancer-dependent splicing by mediating essential protein-protein interactions and protein-RNA interactions required for 3' splice site selection. It has been shown that different CCCH-type Znf proteins interact with the 3'-untranslated region of various mRNA [PUBMED:9703499, PUBMED:10330172]. This type of Znf is very often present in two copies.", "database": "PfamA", "aliStart": 178, "scoreName": "E-value", "accession": "PF00642.22", "start": 175, "score": 0.00029, "identifier": "Zinc finger C-x8-C-x5-C-x3-H type (and similar)", "type": "DBD", "aliEnd": 200}}, {"startStyle": "straight", "end": 347, "endStyle": "straight", "aliStart": 304, "text": "G-patch", "colour": "#9999ff", "aliEnd": 345, "start": 304, "href": "http://pfam.xfam.org/family/PF01585.21", "type": "pfama", "display": "true", "metadata": {"end": 347, "description": "This domain is found in a number of RNA binding proteins, and is also found in proteins that contain RNA binding domains.  This suggests that this domain may have an RNA binding function. This domain has seven highly conserved glycines.", "database": "PfamA", "aliStart": 304, "scoreName": "E-value", "accession": "PF01585.21", "start": 304, "score": 3.2e-12, "identifier": "G-patch domain", "type": "DBD", "aliEnd": 345}}, {"startStyle": "jagged", "end": 501, "endStyle": "jagged", "aliStart": 433, "text": "Laminin_I", "colour": "#9999ff", "aliEnd": 498, "start": 417, "href": "http://pfam.xfam.org/family/PF06008.12", "type": "pfama", "display": "true", "metadata": {"end": 501, "description": "coiled-coil structure. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure [1].", "database": "PfamA", "aliStart": 433, "scoreName": "E-value", "accession": "PF06008.12", "start": 417, "score": 0.0032, "identifier": "Laminin Domain I", "type": "DBD", "aliEnd": 498}}], "length": 503}

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TF Info Page for ZGPAT (CCCH ZF)