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_009107064.1
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: 232aa    MW: 25698 Da    PI: 10.457
Description NF-YA family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009107064.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1CBFB_NFYA102.73.5e-32123179158
       CBFB_NFYA   1 deplYVNaKQyqrIlkRRqkRakleeekkldeksrkpylheSRhkhAlrRpRgsgGrF 58 
                     +ep++VNaKQy++Il+RR++Rakle+++kl +ksrkpylheSRh hAl+R+RgsgGrF
  XP_009107064.1 123 NEPMFVNAKQYHAILRRRKHRAKLEAQNKL-IKSRKPYLHESRHLHALKRARGSGGRF 179
                     59****************************.**************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005212.0E-36121182IPR001289Nuclear transcription factor Y subunit A
PROSITE profilePS5115237.155122182IPR001289Nuclear transcription factor Y subunit A
PfamPF020459.0E-27124179IPR001289Nuclear transcription factor Y subunit A
PRINTSPR006164.7E-23125147IPR001289Nuclear transcription factor Y subunit A
PROSITE patternPS006860127147IPR018362CCAAT-binding factor, conserved site
PRINTSPR006164.7E-23156179IPR001289Nuclear 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: 232 aa     Download sequence    Send to blast
MQVPTNSNIQ GSQSFSLTKN LMMPCSMKHS GLQLQDQASS STQSTEESGG GYIVSPQGKA  60
IASYTKSTTT SSMVSHDSLF PPPTYFNGFL APEYASQSTV LPHVEMMGLV TSRVPLPHNY  120
QENEPMFVNA KQYHAILRRR KHRAKLEAQN KLIKSRKPYL HESRHLHALK RARGSGGRFL  180
NTKKLQESSK SLCSSLTTPS SSSDRDNMFQ NAPFRFSGYP STHHVSALMS GT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4awl_A8e-21123184263NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT ALPHA
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bra.241561e-141leaf| root
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in the whole plant, except roots. Present in etiolated seedlings. {ECO:0000269|PubMed:11250072, ECO:0000269|PubMed:17322342}.
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
PlantRegMapXP_009107064.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKC7876841e-124KC787684.1 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_009107064.11e-172PREDICTED: nuclear transcription factor Y subunit A-5-like isoform X1
RefseqXP_009107065.11e-172PREDICTED: nuclear transcription factor Y subunit A-5-like isoform X1
SwissprotQ9SYH41e-110NFYA5_ARATH; Nuclear transcription factor Y subunit A-5
TrEMBLA0A397ZAB11e-171A0A397ZAB1_BRACM; Uncharacterized protein
STRINGBra014368.1-P1e-145(Brassica rapa)
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
AT1G54160.12e-98nuclear 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]