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 Sopim06g054600.0.1
Organism
Solanum pimpinellifolium
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
Sopim06g054600.0.1genomeCSHLView 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++
  Sopim06g054600.0.1 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++
  Sopim06g054600.0.1 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: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*
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9755181e-127HG975518.1 Solanum lycopersicum chromosome ch06, complete genome.
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
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. 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]