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 Solyc06g054600.2.1
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 C3H
Protein Properties Length: 187aa    MW: 20703.9 Da    PI: 8.363
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc06g054600.2.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH30.75.2e-101030727
                        SGGGGTS--TTTTT-SS-SSS CS
             zf-CCCH  7 rffartGtCkyGdrCkFaHgp 27
                        ++++rtG Ck+G++Ck++H++
  Solyc06g054600.2.1 10 QYYMRTGMCKFGASCKYHHPR 30
                        59*****************96 PP
2zf-CCCH361.2e-114164427
                        ---SGGGGTS--TTTTT-SS-SSS CS
             zf-CCCH  4 elCrffartGtCkyGdrCkFaHgp 27
                        ++C ++++tG+Ck+G +CkF+H++
  Solyc06g054600.2.1 41 KECAHYMKTGHCKFGITCKFNHPQ 64
                        68********************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003560.21830IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010310.4181031IPR000571Zinc finger, CCCH-type
PfamPF006429.9E-71030IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.107.5E-41130IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.0143765IPR000571Zinc finger, CCCH-type
SuperFamilySSF902299.03E-63965IPR000571Zinc finger, CCCH-type
SMARTSM003561.9E-43964IPR000571Zinc finger, CCCH-type
PfamPF006425.0E-94164IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.6E-44363IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0061158Biological Process3'-UTR-mediated mRNA destabilization
GO:0005829Cellular Componentcytosol
GO:0003730Molecular FunctionmRNA 3'-UTR binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 187 aa     Download sequence    Send to blast
MLVVPGYDLQ YYMRTGMCKF GASCKYHHPR QGEESPSLNE KECAHYMKTG HCKFGITCKF  60
NHPQPAGVQV PALAAGPFPL PAAVPPPATY PELQPLPPVD SAEQYGMVTG FYLSSAIPNY  120
SICSWSRSSA MPNFSLCSWS RSSLWSYTNI CFSTCLRKPI CISYCFSWCF KQHPGWTCIS  180
GKTWAA*
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc06g054600.2.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2437128e-26Solanum lycopersicum strain Heinz 1706 chromosome 1 clone slm-44j2 map 1, complete sequence
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025887306.14e-59zinc finger CCCH domain-containing protein 58
SwissprotQ6NPN33e-22C3H58_ARATH; Zinc finger CCCH domain-containing protein 58
TrEMBLK4C6E61e-135K4C6E6_SOLLC; Uncharacterized protein
STRINGSolyc06g054600.2.11e-136(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA1598556
Representative plantOGRP12471750
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G18550.19e-22C3H family protein
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. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]