TF Info Page for RFX2 (RFX)

Conclusion

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

Description

Description: regulatory factor X2 [Source:HGNC Symbol;Acc:HGNC:9983]
Entrez Summary NA
Ensembl ID: ENSG00000087903
External Link: CisBP
Interpro IPR003150; IPR007668;
Protein Domain: ENSP00000306335
Protein Domain: ENSP00000352076
Protein Domain: ENSP00000467166
Protein Domain: ENSP00000467736
Protein Domain: ENSP00000465122
Protein Domain: ENSP00000466890
Domain:
Protein: ENSP00000306335DBD: RFXOther: RFX1_trans_act
Protein: ENSP00000352076DBD: RFXOther: RFX1_trans_act
Protein: ENSP00000467166DBD: RFXOther: RFX1_trans_act
Protein: ENSP00000467736DBD: RFXOther:
Protein: ENSP00000465122DBD: RFXOther:
Protein: ENSP00000466890DBD: RFXOther: RFX1_trans_act

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_DNA-Binding
sequence-specific_DNA Binding_
PMIDS:8289803 16676351
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:0003700
sequence-specific DNA binding transcription factor activity
IBA - GO_REF:0000033 | 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
HT-SELEXJolma2013Direct
HT-SELEXJolma2013Direct
HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
PBMZoo_01Direct
SELEXJASPARDirect
MiscHocoMocoDirect
MiscHOMERDirect
PBMZoo_01Inferred - RFX2 (94% AA Identity, Ornithorhynchus anatinus)
SMiLE-seqIsakova2017Inferred - RFX2 (93% AA Identity, Mus musculus)
HT-SELEXJolma2010Inferred - RFX3 (91% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - RFX3 (91% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - RFX3 (91% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - RFX3 (91% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - RFX3 (91% AA Identity, Homo sapiens)
PBMBadis09Inferred - Rfx3 (91% AA Identity, Mus musculus)
MiscHocoMocoInferred - RFX3 (91% AA Identity, Homo sapiens)
MiscHOMERInferred - RFX3 (91% AA Identity, Homo sapiens)
PBMZoo_01Inferred - GB41876 (83% AA Identity, Apis mellifera)
PBMZoo_01Inferred - RFX1 (80% AA Identity, Anolis carolinensis)
HT-SELEXYin2017Inferred - RFX1 (80% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - RFX1 (80% AA Identity, Homo sapiens)
PBMZoo_01Inferred - rfx1a (80% AA Identity, Tetraodon nigroviridis)
TransfacTransfacLicense requiredInferred - RFX1 (80% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - RFX1 (80% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - RFX1 (80% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - RFX1 (80% AA Identity, Homo sapiens)
ChIP-seqJASPARInferred - Rfx1 (80% AA Identity, Mus musculus)
MiscHocoMocoInferred - RFX1 (80% AA Identity, Homo sapiens)
PBMZoo_01Inferred - PHUM046580 (78% AA Identity, Pediculus humanus)
HT-SELEXNitta2015Inferred - Rfx (78% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Rfx (78% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Rfx (78% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Rfx (78% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Rfx (78% AA Identity, Drosophila melanogaster)
PBMZoo_01Inferred - G4VLF2_SCHMA (77% AA Identity, Schistosoma mansoni)
PBMZoo_01Inferred - Sjc_0102030 (76% AA Identity, Schistosoma japonicum)
PBMZoo_01Inferred - XP_002157607.1 (75% AA Identity, Hydra magnipapillata)
PBMCEPDInferred - daf-19 (67% AA Identity, Caenorhabditis elegans)
PBMZoo_01Inferred - RFX4 (60% AA Identity, Cavia porcellus)
HT-SELEXYin2017Inferred - RFX4 (60% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - RFX4 (60% AA Identity, Homo sapiens)
PBMBadis09Inferred - Rfx4 (60% AA Identity, Mus musculus)

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