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 Solyc10g085560.1.1
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 C2H2
Protein Properties Length: 308aa    MW: 33654.1 Da    PI: 4.4883
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc10g085560.1.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H212.10.00062282303323
                         ETTTTEEESSHHHHHHHHHH.T CS
             zf-C2H2   3 CpdCgksFsrksnLkrHirt.H 23 
                         C+ C+++F +   L++H +  H
  Solyc10g085560.1.1 282 CKTCNRTFGSENALESHSKAkH 303
                         *****************88777 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5015711.032280307IPR007087Zinc finger, C2H2
PfamPF139121.1E-5282304IPR007087Zinc finger, C2H2
PROSITE patternPS000280282303IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009294Biological ProcessDNA mediated transformation
GO:0009944Biological Processpolarity specification of adaxial/abaxial axis
GO:0010162Biological Processseed dormancy process
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0005618Cellular Componentcell wall
GO:0005730Cellular Componentnucleolus
GO:0005739Cellular Componentmitochondrion
GO:0005774Cellular Componentvacuolar membrane
GO:0005829Cellular Componentcytosol
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 308 aa     Download sequence    Send to blast
MEFWGAEVKS GQPLSVQPGD DMVLHLSQAS LGEVKKDKAS EPVCLSVTID GKKLVLGTLS  60
LDKLPQQQFD LVFDRDFELS HNWKNGSVYF FGYKAANPFE EYPFLFFYFL FVSLTTIVCD  120
TEEDVDEVED ESDEEIPLSI ANNGKTEAKA SAKDSASTKQ KVRVIEFTKV DKAEDQDEST  180
DESADEDDSM MGEDEEGDSD EDQSDESEEE TPKKAEPSRK RPADSAAKTP VPDKKTKFLT  240
PQKTDGKKGA VHVATPHPSK QAGKTPGNKP NQTPKSGGSL ACKTCNRTFG SENALESHSK  300
AKHSAGK*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Les.55000.0floral bud| flower| fruit| leaf| stem| trichome
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed during fertilization, while it is repressed during seed development. {ECO:0000269|PubMed:15082924}.
UniprotTISSUE SPECIFICITY: Predominantly expressed in ovaries. Accumulates predominantly in the micropylar region of the ovule's integument. {ECO:0000269|PubMed:15082924}.
Functional Description ? help Back to Top
Source Description
UniProtMediates the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events (By similarity). {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc10g085560.1.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By fertilization. {ECO:0000269|PubMed:15082924}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0140290.0Lycopersicon esculentum clone 133091F, mRNA sequence
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004249622.11e-176histone deacetylase HDT1
SwissprotQ6V9I61e-106HDT1_SOLCH; Histone deacetylase HDT1
TrEMBLA0A3Q7JGU10.0A0A3Q7JGU1_SOLLC; Uncharacterized protein
STRINGSolyc10g085560.1.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA31761823
Representative plantOGRP10531129
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G44750.23e-33histone deacetylase 3
Publications ? help Back to Top
  1. Lagacé M,Chantha SC,Major G,Matton DP
    Fertilization induces strong accumulation of a histone deacetylase (HD2) and of other chromatin-remodeling proteins in restricted areas of the ovules.
    Plant Mol. Biol., 2003. 53(6): p. 759-69
    [PMID:15082924]
  2. 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]