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_009143745.1
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: 197aa    MW: 22197.8 Da    PI: 8.7803
Description NF-YA family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009143745.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1CBFB_NFYA100.81.4e-3197153158
       CBFB_NFYA   1 deplYVNaKQyqrIlkRRqkRakleeekkldeksrkpylheSRhkhAlrRpRgsgGrF 58 
                     +ep++VNaKQy++Il+RRq+Rakle++++  +ks+kpy+heSRh hA++RpRg+gGrF
  XP_009143745.1  97 EEPVFVNAKQYHGILRRRQSRAKLEARNRA-IKSKKPYMHESRHLHAINRPRGCGGRF 153
                     69****************************.**************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005212.3E-3595156IPR001289Nuclear transcription factor Y subunit A
PROSITE profilePS5115237.13296156IPR001289Nuclear transcription factor Y subunit A
PfamPF020451.7E-2698153IPR001289Nuclear transcription factor Y subunit A
PRINTSPR006162.5E-2399121IPR001289Nuclear transcription factor Y subunit A
PROSITE patternPS006860101121IPR018362CCAAT-binding factor, conserved site
PRINTSPR006162.5E-23130153IPR001289Nuclear transcription factor Y subunit A
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0048510Biological Processregulation of timing of transition from vegetative to reproductive phase
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: 197 aa     Download sequence    Send to blast
MTSSVHELSD NNESHKKQER PDSQTPPPVP SGPCSESIDT SSVYSEPMAH GLYPYPDPYY  60
RSVFAHQAYL PHPFPGVQMQ LMGMHQQVVP LQCDAVEEPV FVNAKQYHGI LRRRQSRAKL  120
EARNRAIKSK KPYMHESRHL HAINRPRGCG GRFLNAKKKN GDRKEEEEEA TSDENTSEAS  180
SSIRSEKAAM GPNVSRS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4awl_A2e-2096160165NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT ALPHA
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bra.36040.0flower| leaf| root
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in stems, caulines, and senescent flowers. {ECO:0000269|PubMed:11250072}.
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_009143745.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3533790.0AK353379.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-41-M24.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009143745.11e-146PREDICTED: nuclear transcription factor Y subunit A-4
RefseqXP_009143746.11e-146PREDICTED: nuclear transcription factor Y subunit A-4
SwissprotQ8VY641e-123NFYA4_ARATH; Nuclear transcription factor Y subunit A-4
TrEMBLA0A078H1I01e-145A0A078H1I0_BRANA; BnaA05g09110D protein
TrEMBLA0A397ZC371e-145A0A397ZC37_BRACM; Uncharacterized protein
TrEMBLM4CMF91e-145M4CMF9_BRARP; Uncharacterized protein
STRINGBra005397.1-P1e-145(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM41682756
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G34720.11e-111nuclear factor Y, subunit A4
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. Zhao H, et al.
    The Arabidopsis thaliana Nuclear Factor Y Transcription Factors.
    Front Plant Sci, 2016. 7: p. 2045
    [PMID:28119722]