PlantTFDB
Plant Transcription Factor Database
v4.0
Previous version: v1.0, v2.0, v3.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Solyc08g007960.1.1
Organism
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: 125aa    MW: 13990.9 Da    PI: 6.9449
Description NF-YC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc08g007960.1.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YC100.21.5e-31181031998
               NF-YC  19 helPlarikkilk.adedvkmisaeaPvllskacelfileltlrswl.....haeenkrrtlkksdiaaavtrtdifdflvdivpr 98 
                         h+lPlarikki+k + +dvkmis eaP+++skacelfi elt r+w+     + +e++r+tl+k d+a+a+  td+fdflv+ v +
  Solyc08g007960.1.1  18 HSLPLARIKKIMKkSSDDVKMISGEAPIVFSKACELFIEELTKRAWIimtnnNMHEKRRSTLQKDDVASAIIATDVFDFLVNLVSN 103
                         99**********825689****************************83222234567899*********************99876 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF471131.03E-211597IPR009072Histone-fold
PfamPF008085.5E-181988IPR003958Transcription factor CBF/NF-Y/archaeal histone domain
Gene3DG3DSA:1.10.20.103.7E-2920102IPR009072Histone-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: 125 aa     Download sequence    Send to blast
MRQAGAYSGI LSRKTGPHSL PLARIKKIMK KSSDDVKMIS GEAPIVFSKA CELFIEELTK  60
RAWIIMTNNN MHEKRRSTLQ KDDVASAIIA TDVFDFLVNL VSNTTHDHNN CEELNDEESR  120
QDSP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4g92_C2e-251810140117HapE
4g91_C2e-251810140117HapE
Search in ModeBase
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0102600.0Solanum lycopersicum DNA, chromosome 8, clone: C08SLe0010M05, complete sequence
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009628926.11e-55PREDICTED: nuclear transcription factor Y subunit C-2-like
RefseqXP_009785550.11e-55PREDICTED: nuclear transcription factor Y subunit C-2-like
RefseqXP_016485723.11e-55PREDICTED: nuclear transcription factor Y subunit C-2-like
RefseqXP_016505996.11e-55PREDICTED: nuclear transcription factor Y subunit C-2-like
SwissprotQ9ZVL31e-30NFYC3_ARATH; Nuclear transcription factor Y subunit C-3
TrEMBLK4CIT12e-89K4CIT1_SOLLC; Uncharacterized protein
STRINGSolyc08g007960.1.16e-89(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP31517117
AsteridsOGEA128811720
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G54830.36e-32nuclear factor Y, subunit C3
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]