PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID RrC7189_p2
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family NF-YA
Protein Properties Length: 280aa    MW: 30356.3 Da    PI: 6.5124
Description NF-YA family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC7189_p2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1CBFB_NFYA94.51.3e-29174229158
   CBFB_NFYA   1 deplYVNaKQyqrIlkRRqkRakleeekkldeksrkpylheSRhkhAlrRpRgsgGrF 58 
                 +ep+YVNaKQy++Il+RR++Rak+e e+k+   +rkpylheSRhkhA+rR+R+sgGrF
  RrC7189_p2 174 QEPVYVNAKQYEGILRRRKARAKAELERKV--INRKPYLHESRHKHAMRRARASGGRF 229
                 69***************************9..89***********************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005214.4E-31172232IPR001289Nuclear transcription factor Y subunit A
PROSITE profilePS5115234.587173232IPR001289Nuclear transcription factor Y subunit A
PfamPF020454.2E-26175229IPR001289Nuclear transcription factor Y subunit A
PRINTSPR006164.1E-23176198IPR001289Nuclear transcription factor Y subunit A
PROSITE patternPS006860178198IPR018362CCAAT-binding factor, conserved site
PRINTSPR006164.1E-23206229IPR001289Nuclear transcription factor Y subunit A
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010262Biological Processsomatic embryogenesis
GO:0048510Biological Processregulation of timing of transition from vegetative to reproductive phase
GO:0055046Biological Processmicrogametogenesis
GO:0016602Cellular ComponentCCAAT-binding factor complex
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 280 aa     Download sequence    Send to blast
MQPKSGRGNE EEVNHQHADD QQQQPMMYPE PWWKNNAAFG VIPPPSSGLP SNSSSLDCPN  60
GSESNDLHSA SEDGAAGAND AAWKDSSQAV TSSPSVDHHG MEGSDPTHVA ASMHNQQPVQ  120
PPELVGHYMA CVPNPYQDPY YAGMMGAYGH QPLGFRPYLG MPRERTALPL DITQEPVYVN  180
AKQYEGILRR RKARAKAELE RKVINRKPYL HESRHKHAMR RARASGGRFA KKTEAEAAED  240
AAAAAAAAGR EREKGSATNS SGSEPVETDS NETFNSSGAP
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4awl_A1e-15173229158NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT ALPHA
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1213222RHKHAMRRAR
Functional Description ? help Back to Top
Source Description
UniProtStimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters. {ECO:0000250}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018444539.11e-172PREDICTED: nuclear transcription factor Y subunit A-1-like isoform X2
RefseqXP_018444576.11e-172PREDICTED: nuclear transcription factor Y subunit A-1-like isoform X2
SwissprotQ9LXV51e-153NFYA1_ARATH; Nuclear transcription factor Y subunit A-1
TrEMBLA0A3N6T2801e-168A0A3N6T280_BRACR; Uncharacterized protein
STRINGBo9g169310.11e-164(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM59462646
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G12840.31e-128nuclear factor Y, subunit A1
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Siriwardana CL, et al.
    NUCLEAR FACTOR Y, Subunit A (NF-YA) Proteins Positively Regulate Flowering and Act Through FLOWERING LOCUS T.
    PLoS Genet., 2016. 12(12): p. e1006496
    [PMID:27977687]
  3. Zhao H, et al.
    The Arabidopsis thaliana Nuclear Factor Y Transcription Factors.
    Front Plant Sci, 2016. 7: p. 2045
    [PMID:28119722]