TF Info Page for RFX1 (RFX)

Conclusion

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

Description

Description: regulatory factor X1 [Source:HGNC Symbol;Acc:HGNC:9982]
Entrez Summary This gene encodes a member of the regulatory factor X (RFX) family of transcription factors, which are characterized by a winged-helix DNA-binding domain. The encoded transcription factor contains an N-terminal activation domain and a C-terminal repression domain, and may activate or repress target gene expression depending on cellular context. This transcription factor has been shown to regulate a wide variety of genes involved in immunity and cancer, including the MHC class II genes and genes that may be involved in cancer progression. This gene exhibits altered expression in glioblastoma and the autoimmune disease systemic lupus erythematosis (SLE). [provided by RefSeq, Jul 2016]
Ensembl ID: ENSG00000132005
External Link: CisBP
Interpro IPR003150; IPR007668;
Protein Domain: ENSP00000254325
Protein Domain: ENSP00000464960
Domain:
Protein: ENSP00000254325DBD: RFXOther: RFX1_trans_act
Protein: ENSP00000464960DBD: RFXOther:

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_DNA-Binding
sequence-specific_Co-activation
DNA Binding_
PMIDS:11986307 16464847
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.
a
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:0003705
RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity
TAS - PMID:8289803
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
HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
MiscHocoMocoDirect
PBMZoo_01Inferred - RFX1 (100% AA Identity, Anolis carolinensis)
PBMZoo_01Inferred - rfx1a (100% AA Identity, Tetraodon nigroviridis)
ChIP-seqJASPARInferred - Rfx1 (100% AA Identity, Mus musculus)
PBMZoo_01Inferred - G4VLF2_SCHMA (86% AA Identity, Schistosoma mansoni)
PBMZoo_01Inferred - RFX2 (85% AA Identity, Homo sapiens)
PBMZoo_01Inferred - RFX2 (85% AA Identity, Ornithorhynchus anatinus)
PBMBadis09Inferred - Rfx3 (85% AA Identity, Mus musculus)
PBMZoo_01Inferred - PHUM046580 (84% AA Identity, Pediculus humanus)
PBMZoo_01Inferred - Sjc_0102030 (84% AA Identity, Schistosoma japonicum)
PBMZoo_01Inferred - GB41876 (83% AA Identity, Apis mellifera)
HT-SELEXNitta2015Inferred - Rfx (81% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Rfx (81% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Rfx (81% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Rfx (81% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Rfx (81% AA Identity, Drosophila melanogaster)
SMiLE-seqIsakova2017Inferred - RFX2 (81% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - RFX2 (80% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - RFX2 (80% AA Identity, Homo sapiens)
HT-SELEXJolma2010Inferred - RFX3 (80% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - RFX3 (80% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - RFX3 (80% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - RFX3 (80% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - RFX3 (80% AA Identity, Homo sapiens)
SELEXJASPARInferred - RFX2 (80% AA Identity, Homo sapiens)
MiscHocoMocoInferred - RFX2 (80% AA Identity, Homo sapiens)
MiscHOMERInferred - RFX2 (80% AA Identity, Homo sapiens)
MiscHocoMocoInferred - RFX3 (80% AA Identity, Homo sapiens)
MiscHOMERInferred - RFX3 (80% AA Identity, Homo sapiens)
PBMZoo_01Inferred - XP_002157607.1 (79% AA Identity, Hydra magnipapillata)
PBMCEPDInferred - daf-19 (72% AA Identity, Caenorhabditis elegans)
PBMZoo_01Inferred - RFX4 (64% AA Identity, Cavia porcellus)
HT-SELEXYin2017Inferred - RFX4 (64% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - RFX4 (64% AA Identity, Homo sapiens)
PBMBadis09Inferred - Rfx4 (64% AA Identity, Mus musculus)

Structure

Structure PDB 1DP7

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