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_02592.1_g00001.1
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-YC
Protein Properties Length: 206aa    MW: 22460.6 Da    PI: 5.2663
Description NF-YC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_02592.1_g00001.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YC179.43.4e-56601641102
                    NF-YC   1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaav 83 
                              ql++fw++q   ie+++dfknh+lPlarikki+kadedv+misaeaP+l++kacelfilelt+rswlhaeenkrrtl+k+diaaa+
  Rsa1.0_02592.1_g00001.1  60 QLQMFWNYQrkeIEQVNDFKNHQLPLARIKKIMKADEDVRMISAEAPILFAKACELFILELTIRSWLHAEENKRRTLQKNDIAAAI 145
                              89*****998899************************************************************************* PP

                    NF-YC  84 trtdifdflvdivprdelk 102
                              trtdifdflvdivpr+e+k
  Rsa1.0_02592.1_g00001.1 146 TRTDIFDFLVDIVPREEIK 164
                              ***************9975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF471136.54E-3446154IPR009072Histone-fold
PfamPF008081.2E-2082145IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
Gene3DG3DSA:1.10.20.105.3E-3783160IPR009072Histone-fold
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009738Biological Processabscisic acid-activated signaling pathway
GO:0010468Biological Processregulation of gene expression
GO:0048586Biological Processregulation of long-day photoperiodism, flowering
GO:0051247Biological Processpositive regulation of protein metabolic process
GO:2000905Biological Processnegative regulation of starch metabolic process
GO:0005634Cellular Componentnucleus
GO:0005829Cellular Componentcytosol
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 206 aa     Download sequence    Send to blast
MDNNNNNNQQ PPPPTSVYPP ASASTAIPPP PSGSTPIIPG GGGGGGGGSY HHLLQQQLQQ  60
LQMFWNYQRK EIEQVNDFKN HQLPLARIKK IMKADEDVRM ISAEAPILFA KACELFILEL  120
TIRSWLHAEE NKRRTLQKND IAAAITRTDI FDFLVDIVPR EEIKEEEDAA LGSLVASAAA  180
GAPAVSGVPY YYPPMGQPAV PGGMMM
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5g49_B1e-5568160395NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1132138RRTLQKN
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 abscisic acid (ABA) signaling pathway. {ECO:0000250, ECO:0000269|PubMed:17322342}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_02592.1_g00001.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKC7971431e-164KC797143.1 Brassica napus transcription factor subunit NF-YC4 (NF-YC4) gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018462985.11e-151PREDICTED: nuclear transcription factor Y subunit C-4-like
SwissprotQ9FMV51e-105NFYC4_ARATH; Nuclear transcription factor Y subunit C-4
TrEMBLA0A384KX141e-102A0A384KX14_ARATH; NF-YC4
TrEMBLB9DG641e-102B9DG64_ARATH; AT5G63470 protein
STRINGAT5G63470.11e-103(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM47828160
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G63470.22e-85nuclear factor Y, subunit C4
Publications ? help Back to Top
  1. Hwang YH, et al.
    Functional conservation of rice OsNF-YB/YC and Arabidopsis AtNF-YB/YC proteins in the regulation of flowering time.
    Plant Cell Rep., 2016. 35(4): p. 857-65
    [PMID:26754793]
  2. Liu X, et al.
    The NF-YC-RGL2 module integrates GA and ABA signalling to regulate seed germination in Arabidopsis.
    Nat Commun, 2016. 7: p. 12768
    [PMID:27624486]
  3. Myers ZA, et al.
    NUCLEAR FACTOR Y, Subunit C (NF-YC) Transcription Factors Are Positive Regulators of Photomorphogenesis in Arabidopsis thaliana.
    PLoS Genet., 2016. 12(9): p. e1006333
    [PMID:27685091]
  4. Tang Y, et al.
    Arabidopsis NF-YCs Mediate the Light-Controlled Hypocotyl Elongation via Modulating Histone Acetylation.
    Mol Plant, 2017. 10(2): p. 260-273
    [PMID:27876642]
  5. Zhao H, et al.
    The Arabidopsis thaliana Nuclear Factor Y Transcription Factors.
    Front Plant Sci, 2016. 7: p. 2045
    [PMID:28119722]
  6. Qi M, et al.
    QQS orphan gene and its interactor NF-YC4 reduce susceptibility to pathogens and pests.
    Plant Biotechnol. J., 2019. 17(1): p. 252-263
    [PMID:29878511]