TF Info Page for NFKB1 (Rel)

Conclusion

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

Description

Description: nuclear factor kappa B subunit 1 [Source:HGNC Symbol;Acc:HGNC:7794]
Entrez Summary This gene encodes a 105 kD protein which can undergo cotranslational processing by the 26S proteasome to produce a 50 kD protein. The 105 kD protein is a Rel protein-specific transcription inhibitor and the 50 kD protein is a DNA binding subunit of the NF-kappa-B (NFKB) protein complex. NFKB is a transcription regulator that is activated by various intra- and extra-cellular stimuli such as cytokines, oxidant-free radicals, ultraviolet irradiation, and bacterial or viral products. Activated NFKB translocates into the nucleus and stimulates the expression of genes involved in a wide variety of biological functions. Inappropriate activation of NFKB has been associated with a number of inflammatory diseases while persistent inhibition of NFKB leads to inappropriate immune cell development or delayed cell growth. Alternative splicing results in multiple transcript variants encoding different isoforms, at least one of which is proteolytically processed. [provided by RefSeq, Feb 2016]
Ensembl ID: ENSG00000109320
External Link: CisBP
Interpro IPR000451; IPR000488; IPR002110; IPR002909; IPR008967; IPR011029; IPR011539; IPR014756; IPR020683; IPR030492;
Protein Domain: ENSP00000226574
Protein Domain: ENSP00000378297
Protein Domain: ENSP00000424790
Protein Domain: ENSP00000469340
Protein Domain: ENSP00000424815
Domain:
Protein: ENSP00000226574DBD: RHDOther: Ank, Ank_2, Ank_3, Ank_4, Ank_5, Death, RHD_dimer
Protein: ENSP00000378297DBD: RHDOther: Ank, Ank_2, Ank_3, Ank_4, Ank_5, Death, RHD_dimer
Protein: ENSP00000424790DBD: RHDOther: Ank, Ank_2, Ank_3, Ank_4, Ank_5, Death, RHD_dimer
Protein: ENSP00000469340DBD: RHDOther: Ank, Ank_2, Ank_3, Ank_4, Ank_5, Death, RHD_dimer
Protein: ENSP00000424815DBD: RHDOther: RHD_dimer

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_DNA-Binding
sequence-specific_DNA Binding
Transactivation_
PMIDS:1406630
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:0001205
RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity involv
IDA - PMID:1406630
GO:0001227
RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor
IDA - PMID:24434510
GO:0003700
sequence-specific DNA binding transcription factor activity
IDA - PMID:17426251
GO:0051092
positive regulation of NF-kappaB transcription factor activity
TAS - Reactome:R-HSA-445989
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
SMiLE-seqIsakova2017Direct
HT-SELEXJolma2013Direct
SELEXJASPARDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
MiscHocoMocoDirect

Structure

Structure PDB 1LE5

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