PlantTFDB
Plant Transcription Factor Database
v4.0
Previous version: v3.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Solyc05g008670.2.1
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 C3H
Protein Properties Length: 299aa    MW: 33690 Da    PI: 8.5838
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc05g008670.2.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH482e-15217242126
                         --S---SGGGGTS--TTTTT-SS-SS CS
             zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                         +ktelC+ +++tG C+yG++C+FaHg
  Solyc05g008670.2.1 217 FKTELCNKWQETGACPYGENCQFAHG 242
                         79***********************8 PP

2zf-CCCH17.67e-06255280126
                         --S---SGGGGTS.--TTTTT-SS-SS CS
             zf-CCCH   1 yktelCrffartG.tCkyGdrCkFaHg 26 
                         ykte Cr  +  G  C+yG rC+F H+
  Solyc05g008670.2.1 255 YKTEVCRMVLN-GdPCPYGHRCHFRHS 280
                         9******9999.55**********998 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.101.7E-19211249IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.22E-11213248IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010316.446216244IPR000571Zinc finger, CCCH-type
SMARTSM003563.6E-9216243IPR000571Zinc finger, CCCH-type
PfamPF006421.8E-12217242IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.5E-11250283IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.96E-8250284IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.488254282IPR000571Zinc finger, CCCH-type
SMARTSM003567.8E-5254281IPR000571Zinc 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:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 299 aa     Download sequence    Send to blast
MLFPPAGLLL DDSQPSTETT VTPVLTPRFR QNHSSQLLID QHYQQDLMDR HNRVLSQLLE  60
TEKKTLALRQ ENINLKMVNF NLNNRLSLLL KASSDYGPSS SLGLDNGLRR MHVGVGHEEE  120
TSSDGHSWED VVADRHLSPT SVMDSGRADG VDRVLLPKSI SVRSNGYLKT NHAAGGSRPH  180
NRTKSSSVNT AQRVYVKGGS KKEEEPLELD VYNQGMFKTE LCNKWQETGA CPYGENCQFA  240
HGIEELRPVL RHPRYKTEVC RMVLNGDPCP YGHRCHFRHS LTDKEKLMRS LNSKMRSN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1rgo_A8e-23217280467Butyrate response factor 2
Search in ModeBase
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00383ampDAPTransfer from AT1G68200Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2123040.0Solanum lycopersicum chromosome 05 clone C05HBa0309L13, complete sequence
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004238882.10.0PREDICTED: zinc finger CCCH domain-containing protein 15-like
SwissprotQ9C9F53e-67C3H15_ARATH; Zinc finger CCCH domain-containing protein 15
TrEMBLK4BX410.0K4BX41_SOLLC; Uncharacterized protein
STRINGSolyc05g008670.2.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA91402228
Representative plantOGRP20581636
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G68200.13e-63C3H 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]