TF Info Page for PRDM16 (C2H2 ZF)

Conclusion

Assessment Binding Mode Motif Status Notes Comments
Inferred motif 1 Monomer or homomultimer In vivo/Misc source

Description

Description: PR domain 16 [Source:HGNC Symbol;Acc:HGNC:14000]
Entrez Summary The reciprocal translocation t(1;3)(p36;q21) occurs in a subset of myelodysplastic syndrome (MDS) and acute myeloid leukemia (AML). This gene is located near the 1p36.3 breakpoint and has been shown to be specifically expressed in the t(1:3)(p36,q21)-positive MDS/AML. The protein encoded by this gene is a zinc finger transcription factor and contains an N-terminal PR domain. The translocation results in the overexpression of a truncated version of this protein that lacks the PR domain, which may play an important role in the pathogenesis of MDS and AML. Alternatively spliced transcript variants encoding distinct isoforms have been reported. [provided by RefSeq, Jul 2008]
Ensembl ID: ENSG00000142611
External Link: CisBP
Interpro IPR001214; IPR007087; IPR015880; ;
Protein Domain: ENSP00000270722
Protein Domain: ENSP00000367643
Domain:
Protein: ENSP00000270722DBD: C2H2 ZF Containing ProteinsOther: SET
Protein: ENSP00000367643DBD: C2H2 ZF Containing ProteinsOther: SET

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.
b
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
SELEXJASPARInferred - Mecom (88% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - MECOM (87% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - MECOM (87% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - MECOM (87% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - MECOM (87% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - MECOM (87% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - MECOM (87% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - MECOM (87% AA Identity, Homo sapiens)
MiscHocoMocoInferred - MECOM (87% 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