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 Rsa1.0_02406.1_g00004.1
Organism
Raphanus sativus
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: 228aa    MW: 25370.7 Da    PI: 10.1766
Description NF-YA family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_02406.1_g00004.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1CBFB_NFYA102.73.4e-32117173158
                CBFB_NFYA   1 deplYVNaKQyqrIlkRRqkRakleeekkldeksrkpylheSRhkhAlrRpRgsgGrF 58 
                              +ep++VNaKQy++Il+RR++Rakle+++kl +ksrkpylheSRh hAl+R+RgsgGrF
  Rsa1.0_02406.1_g00004.1 117 NEPMFVNAKQYHAILRRRKHRAKLEAQNKL-IKSRKPYLHESRHLHALKRARGSGGRF 173
                              59****************************.**************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005212.0E-36115176IPR001289Nuclear transcription factor Y subunit A
PROSITE profilePS5115237.155116176IPR001289Nuclear transcription factor Y subunit A
PfamPF020458.8E-27118173IPR001289Nuclear transcription factor Y subunit A
PRINTSPR006164.6E-23119141IPR001289Nuclear transcription factor Y subunit A
PROSITE patternPS006860121141IPR018362CCAAT-binding factor, conserved site
PRINTSPR006164.6E-23150173IPR001289Nuclear 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: 228 aa     Download sequence    Send to blast
MMMPCSMKRS GLQLQDQDSS STQSTGEESG GGYMVSPHGK AIASYCKSTT TSSSMVSQDS  60
VFPPPASGWS LQCPETSHLN NFLAPEYYAS QPTVVAHVEM MGLVTSRVPL PHNYQENEPM  120
FVNAKQYHAI LRRRKHRAKL EAQNKLIKSR KPYLHESRHL HALKRARGSG GRFLNTKKKL  180
QESSKSLCSS SITPRSDSDR DNMFQNPSFR FSGYPSTTHH VSALMSGT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4awl_A2e-21117195278NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT ALPHA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtStimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters (By similarity). Involved in the blue light (BL) and abscisic acid (ABA) signaling pathways. {ECO:0000250, ECO:0000269|PubMed:17322342}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_02406.1_g00004.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKC7876843e-79KC787684.1 Brassica napus transcription factor subunit NF-YA5B (NF-YA5B) gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018489439.11e-169PREDICTED: nuclear transcription factor Y subunit A-5-like isoform X1
RefseqXP_018489440.11e-169PREDICTED: nuclear transcription factor Y subunit A-5-like isoform X1
RefseqXP_018489441.11e-169PREDICTED: nuclear transcription factor Y subunit A-5-like isoform X1
RefseqXP_018489443.11e-169PREDICTED: nuclear transcription factor Y subunit A-5-like isoform X1
RefseqXP_018489444.11e-169PREDICTED: nuclear transcription factor Y subunit A-5-like isoform X1
SwissprotQ9SYH41e-105NFYA5_ARATH; Nuclear transcription factor Y subunit A-5
TrEMBLA0A078GNE11e-108A0A078GNE1_BRANA; BnaC06g10580D protein
TrEMBLA0A0D3CSB31e-108A0A0D3CSB3_BRAOL; Uncharacterized protein
STRINGBo6g050970.11e-109(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM116331733
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G54160.14e-88nuclear factor Y, subunit A5
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. Gao W,Liu W,Zhao M,Li WX
    NERF encodes a RING E3 ligase important for drought resistance and enhances the expression of its antisense gene NFYA5 in Arabidopsis.
    Nucleic Acids Res., 2015. 43(1): p. 607-17
    [PMID:25514924]
  3. Zhao H, et al.
    The Arabidopsis thaliana Nuclear Factor Y Transcription Factors.
    Front Plant Sci, 2016. 7: p. 2045
    [PMID:28119722]
  4. Nasim Z,Fahim M,Ahn JH
    Possible Role of MADS AFFECTING FLOWERING 3 and B-BOX DOMAIN PROTEIN 19 in Flowering Time Regulation of Arabidopsis Mutants with Defects in Nonsense-Mediated mRNA Decay.
    Front Plant Sci, 2017. 8: p. 191
    [PMID:28261246]
  5. Du Q,Zhao M,Gao W,Sun S,Li WX
    microRNA/microRNA* complementarity is important for the regulation pattern of NFYA5 by miR169 under dehydration shock in Arabidopsis.
    Plant J., 2017. 91(1): p. 22-33
    [PMID:28332758]
  6. Huang KC,Lin WC,Cheng WH
    Salt hypersensitive mutant 9, a nucleolar APUM23 protein, is essential for salt sensitivity in association with the ABA signaling pathway in Arabidopsis.
    BMC Plant Biol., 2018. 18(1): p. 40
    [PMID:29490615]