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 RrC866_p1
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: 238aa    MW: 26845 Da    PI: 9.0877
Description NF-YA family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC866_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1CBFB_NFYA99.82.8e-31138194158
  CBFB_NFYA   1 deplYVNaKQyqrIlkRRqkRakleeekkldeksrkpylheSRhkhAlrRpRgsgGrF 58 
                +ep++VNaKQy++Il+RRq+Rakle++++   ks+kpy+heSRh hA++RpRg+gGrF
  RrC866_p1 138 EEPVFVNAKQYHGILRRRQSRAKLEARNRA-MKSKKPYMHESRHLHAINRPRGCGGRF 194
                69****************************.9*************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005217.2E-35136197IPR001289Nuclear transcription factor Y subunit A
PROSITE profilePS5115236.66137197IPR001289Nuclear transcription factor Y subunit A
PfamPF020451.6E-26139194IPR001289Nuclear transcription factor Y subunit A
PRINTSPR006163.3E-23140162IPR001289Nuclear transcription factor Y subunit A
PROSITE patternPS006860142162IPR018362CCAAT-binding factor, conserved site
PRINTSPR006163.3E-23171194IPR001289Nuclear 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: 238 aa     Download sequence    Send to blast
MIDDSHKRKI LQGQRAEVGP SETSGDEQNE KIFGQLFQIR PSLPTNGCLF HNNESRKKQE  60
RPDSQTPPPA PPGPCSESID TSSVYSEPMA HGLYPYPDPY YRSVFAQQAY LPHPYPGVQM  120
QLMGMHQQVV PLQCDAVEEP VFVNAKQYHG ILRRRQSRAK LEARNRAMKS KKPYMHESRH  180
LHAINRPRGC GGRFLNAKKK NGGRKEEEEE EATSDENTSE ASSSLRSEKS AMAPNGRS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4awl_A9e-20137201165NUCLEAR 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. {ECO:0000250}.
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_018434609.11e-126PREDICTED: nuclear transcription factor Y subunit A-4
RefseqXP_018434610.11e-126PREDICTED: nuclear transcription factor Y subunit A-4
SwissprotQ8VY641e-113NFYA4_ARATH; Nuclear transcription factor Y subunit A-4
TrEMBLA0A3P6BXA11e-123A0A3P6BXA1_BRAOL; Uncharacterized protein
STRINGBo4g039370.11e-123(Brassica oleracea)
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-95nuclear 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]