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 Solyc03g110840.1.1
Organism
Solanum lycopersicum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon
Family NF-YC
Protein Properties Length: 163aa    MW: 18373.8 Da    PI: 5.2969
Description NF-YC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc03g110840.1.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YC123.21.1e-3832133299
               NF-YC   2 lksfwekq...iekatdfknh.elPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdi 88 
                         l++fw++q   +e+ +dfk++  lP +rikki+k++edv+m++ e+Pvll+kacelfi +ltlrs +ha+en+rr lkk d+++++ +td 
  Solyc03g110840.1.1  32 LEMFWKSQqsqMENIKDFKDRlLLPPTRIKKIMKKNEDVRMVAGESPVLLAKACELFIQDLTLRSSIHAQENHRRILKKDDLTDVIVQTDY 122
                         789**9887889*******66268******************************************************************* PP

               NF-YC  89 fdflvdivprd 99 
                         fdfl+d+v r+
  Solyc03g110840.1.1 123 FDFLLDVVHRN 133
                         ********986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF471134.89E-2236126IPR009072Histone-fold
PfamPF008085.7E-1755114IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
Gene3DG3DSA:1.10.20.102.9E-2755131IPR009072Histone-fold
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 163 aa     Download sequence    Send to blast
MSELSNVEKT TMKNNSEKSI VNAAQSTGYP TLEMFWKSQQ SQMENIKDFK DRLLLPPTRI  60
KKIMKKNEDV RMVAGESPVL LAKACELFIQ DLTLRSSIHA QENHRRILKK DDLTDVIVQT  120
DYFDFLLDVV HRNGATDPFT PNSVPLYAAG GSNEEDGNNL DQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5g49_B3e-2938132295NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Ubiquitous. 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 abscisic acid (ABA) signaling pathway. {ECO:0000250, ECO:0000269|PubMed:17322342}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc03g110840.1.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025886121.11e-119nuclear transcription factor Y subunit C-1-like
SwissprotQ9FMV52e-35NFYC4_ARATH; Nuclear transcription factor Y subunit C-4
TrEMBLM1DJJ72e-90M1DJJ7_SOLTU; Uncharacterized protein
STRINGSolyc03g110840.1.11e-118(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA12872521
Representative plantOGRP31517117
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G63470.21e-37nuclear factor Y, subunit C4
Publications ? help Back to Top
  1. Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD
    Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments.
    Theor. Appl. Genet., 2005. 112(1): p. 72-84
    [PMID:16208505]
  2. 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]
  3. 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]
  4. 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]
  5. 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]
  6. Zhao H, et al.
    The Arabidopsis thaliana Nuclear Factor Y Transcription Factors.
    Front Plant Sci, 2016. 7: p. 2045
    [PMID:28119722]
  7. 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]