TF Info Page for GFI1 (C2H2 ZF)

Conclusion

Assessment Binding Mode Motif Status Notes Comments
Known motif 1 Monomer or homomultimer High-throughput in vitro

Description

Description: growth factor independent 1 transcriptional repressor [Source:HGNC Symbol;Acc:HGNC:4237]
Entrez Summary This gene encodes a nuclear zinc finger protein that functions as a transcriptional repressor. This protein plays a role in diverse developmental contexts, including hematopoiesis and oncogenesis. It functions as part of a complex along with other cofactors to control histone modifications that lead to silencing of the target gene promoters. Mutations in this gene cause autosomal dominant severe congenital neutropenia, and also dominant nonimmune chronic idiopathic neutropenia of adults, which are heterogeneous hematopoietic disorders that cause predispositions to leukemias and infections. Multiple alternatively spliced variants, encoding the same protein, have been identified for this gene. [provided by RefSeq, Jul 2008]
Ensembl ID: ENSG00000162676
External Link: CisBP
Interpro IPR007087; IPR015880;
Protein Domain: ENSP00000359357
Protein Domain: ENSP00000399719
Protein Domain: ENSP00000294702
Domain:
Protein: ENSP00000359357DBD: C2H2 ZF Containing ProteinsOther:
Protein: ENSP00000399719DBD: C2H2 ZF Containing ProteinsOther:
Protein: ENSP00000294702DBD: C2H2 ZF Containing ProteinsOther:

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_DNA-Binding
sequence-specific_DNA Binding_
PMIDS:8754800
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" Yes
GO-Info GO:0001078
RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor a
IDA - PMID:19506020
GO:0032088
negative regulation of NF-kappaB transcription factor activity
ISS - GO_REF:0000024
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
1a1, Direct HQ evidence
TF has conditional DNA-binding requirements

DNA-Binding

Published Motif Data

Source Annotation Motif Evidence
PBMBarrera2016Direct
PBMBarrera2016Direct
PBMBarrera2016Direct
HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
MiscHocoMocoDirect
SELEXJASPARInferred - Gfi1 (100% AA Identity, Rattus norvegicus)
PBMBarrera2016Inferred - GFI1B (87% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - GFI1B (87% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - GFI1B (87% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - GFI1B (87% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - GFI1B (87% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - GFI1B (87% AA Identity, Homo sapiens)
ChIP-seqJASPARInferred - Gfi1b (87% AA Identity, Mus musculus)
MiscHocoMocoInferred - GFI1B (87% AA Identity, Homo sapiens)
MiscHOMERInferred - Gfi1b (87% AA Identity, Mus musculus)

Structure

Structure PDB 2KMK

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