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 XP_009131289.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family NF-YA
Protein Properties Length: 255aa    MW: 28047 Da    PI: 6.9234
Description NF-YA family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009131289.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1CBFB_NFYA96.33.5e-30161216158
       CBFB_NFYA   1 deplYVNaKQyqrIlkRRqkRakleeekkldeksrkpylheSRhkhAlrRpRgsgGrF 58 
                     +ep+YVNaKQy++Il+RR++Rak+e e+kl   +rkpylheSRhkhA++R+R+sgGrF
  XP_009131289.1 161 QEPVYVNAKQYHGILRRRKARAKAELERKL--INRKPYLHESRHKHAMKRARASGGRF 216
                     69****************************..89***********************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005213.1E-32159219IPR001289Nuclear transcription factor Y subunit A
PROSITE profilePS5115235.425160219IPR001289Nuclear transcription factor Y subunit A
PfamPF020454.1E-26162216IPR001289Nuclear transcription factor Y subunit A
PRINTSPR006165.7E-24163185IPR001289Nuclear transcription factor Y subunit A
PROSITE patternPS006860165185IPR018362CCAAT-binding factor, conserved site
PRINTSPR006165.7E-24193216IPR001289Nuclear 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: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: 255 aa     Download sequence    Send to blast
MQSKGSGNEV EVNHHSGEQP MMYAEEPWWK KNNSFGVVPQ EIPSVVLSKS SSLESNDVHS  60
ASGDDGAWKD TQAATSSPSV DNHGVEGNDP AASVGNVHDQ QQLVQPPELV GHYIQACVPN  120
PYQDPYYGGM VGAYGHQQLQ GFRPYPGMPG ERTALPLDMT QEPVYVNAKQ YHGILRRRKA  180
RAKAELERKL INRKPYLHES RHKHAMKRAR ASGGRFAKKT EAEAAAERER EKGSATNSPG  240
PEPVETDSND SLPNL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4awl_A1e-16160216158NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT ALPHA
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1200209RHKHAMKRAR
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bra.254630.0flower
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Ubiquitous. {ECO:0000269|PubMed:11250072, ECO:0000269|PubMed:9662544}.
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009131289.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1895991e-130AC189599.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH014H10, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009131289.10.0PREDICTED: nuclear transcription factor Y subunit A-1-like isoform X1
RefseqXP_009131290.10.0PREDICTED: nuclear transcription factor Y subunit A-1-like isoform X1
SwissprotQ9LXV51e-129NFYA1_ARATH; Nuclear transcription factor Y subunit A-1
TrEMBLM4CPM61e-165M4CPM6_BRARP; Uncharacterized protein
STRINGBra006165.1-P1e-166(Brassica rapa)
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-100nuclear 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]