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 Solyc06g072040.1.1
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: 233aa    MW: 25372.5 Da    PI: 5.0222
Description NF-YC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc06g072040.1.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YC179.33.6e-56441481102
               NF-YC   1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdi 88 
                         ql++fw++q   ie+++dfknh+lPlarikki+kadedv+misaeaPvl++kacelfilelt+rswlhaeenkrrtl+k+diaaa+trtdi
  Solyc06g072040.1.1  44 QLQMFWTYQrqeIEQVNDFKNHQLPLARIKKIMKADEDVRMISAEAPVLFAKACELFILELTIRSWLHAEENKRRTLQKNDIAAAITRTDI 134
                         89*****998899****************************************************************************** PP

               NF-YC  89 fdflvdivprdelk 102
                         fdflvdivprde+k
  Solyc06g072040.1.1 135 FDFLVDIVPRDEIK 148
                         ***********975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF471133.86E-3430138IPR009072Histone-fold
Gene3DG3DSA:1.10.20.103.1E-3758130IPR009072Histone-fold
PfamPF008088.1E-2166129IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 233 aa     Download sequence    Send to blast
MDNNPHQSPT EAAAAAAAAA AAAQSATYPS QTPYHHLLQQ QQQQLQMFWT YQRQEIEQVN  60
DFKNHQLPLA RIKKIMKADE DVRMISAEAP VLFAKACELF ILELTIRSWL HAEENKRRTL  120
QKNDIAAAIT RTDIFDFLVD IVPRDEIKDE GVGLGPGIVG STASGVPYYY PPMGQPAPGG  180
VMLGRPAVPG VDPSMYVHPP PSQAWQSVWQ TGDDNSYASG GSSGQGNLDG QM*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5g49_B4e-5552144395NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1116122RRTLQKN
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Les.143950.0callus| flower| fruit| leaf| root| seed| stem| trichome
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Ubiquitous. Present in etiolated seedlings. {ECO:0000269|PubMed:11250072, ECO:0000269|PubMed:17322342, ECO:0000269|PubMed:9662544}.
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc06g072040.1.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY4902430.0Lycopersicon esculentum CONSTANS interacting protein 2a (CIP2a) mRNA, complete cds
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001234244.11e-173CONSTANS interacting protein 2a
RefseqXP_015079848.11e-173nuclear transcription factor Y subunit C-1-like
SwissprotQ9SMP01e-103NFYC1_ARATH; Nuclear transcription factor Y subunit C-1
TrEMBLA0A3Q7H1D81e-172A0A3Q7H1D8_SOLLC; Uncharacterized protein
STRINGSolyc06g072040.1.11e-173(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA40872143
Representative plantOGRP31517117
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G48590.11e-104nuclear factor Y, subunit C1
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. Shi H,Chan ZL
    AtHAP5A modulates freezing stress resistance in Arabidopsis independent of the CBF pathway.
    Plant Signal Behav, 2015.
    [PMID:24831307]
  3. Shi H,Chan ZL
    AtHAP5A modulates freezing stress resistance in Arabidopsis independent of the CBF pathway.
    Plant Signal Behav, 2014. 9(7): p. e29109
    [PMID:25763489]
  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]