PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Solyc12g008870.1.1
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 C3H
Protein Properties Length: 344aa    MW: 38397 Da    PI: 7.3954
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc12g008870.1.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH18.24.3e-066284426
                        ---SGGGGTS--TTTTT-SS-SS CS
             zf-CCCH  4 elCrffartGtCkyGdrCkFaHg 26
                        +lC  fa +G C++G++C+F H+
  Solyc12g008870.1.1 62 RLCFKFASSGSCPRGNQCHFRHD 84
                        68999999************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.7985886IPR000571Zinc finger, CCCH-type
SMARTSM003566.8E-46085IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.02E-56287IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.4E-66286IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.57790118IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.7E-591119IPR000571Zinc finger, CCCH-type
SMARTSM003560.002492117IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.1E-495119IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:3.30.428.105.3E-5130214IPR011146HIT-like domain
PfamPF046771.0E-33130242IPR006768Cwf19-like, C-terminal domain-1
SuperFamilySSF541971.25E-7136229IPR011146HIT-like domain
PfamPF046761.0E-18260340IPR006767Cwf19-like protein, C-terminal domain-2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005829Cellular Componentcytosol
GO:0003824Molecular Functioncatalytic activity
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 344 aa     Download sequence    Send to blast
MSKTELSAKP PNATSCPYTN VDKAAQPDGA TKRPGDGTSE SQYWRYDVSK KKQKHGDGGG  60
DRLCFKFASS GSCPRGNQCH FRHDEEASEQ YSRGVCFDFL NKGKCEKGPD CNFKHSLQEE  120
GDRSASGTAS SNRSRECWFC LSSPNVESHL ITSVGEYYYC ALAKGPLTPD HVLIMPIEHT  180
PNTLSLPLEC EKELERLQSS LKAYFKKQGK EAVFFEFVRG SHANLQVVPI PSSRASAVRD  240
IFNLAADKLG FKLSMVKEGR QALRTQFDRS CSLFYVEVPG GDILSHVIEE NEKFPAQFGR  300
EVLAGLLNIA DRADWRNCKV SKEEETKMAE RFKNGFQEYD PNQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6id0_U2e-16137340675887CWF19-like protein 2
6id1_U2e-16137340675887CWF19-like protein 2
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Les.57690.0callus| cell culture| fruit| stem
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc12g008870.1.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0145340.0Lycopersicon esculentum clone 133948R, mRNA sequence
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010313754.10.0zinc finger CCCH domain-containing protein 64
SwissprotQ69NK81e-147C3H59_ORYSJ; Zinc finger CCCH domain-containing protein 59
TrEMBLM0ZH920.0M0ZH92_SOLTU; Uncharacterized protein
STRINGSolyc12g008870.1.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA942244
Representative plantOGRP534877
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G68200.23e-06C3H family protein
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  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]