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 Solyc02g085580.2.1
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 C2H2
Protein Properties Length: 528aa    MW: 54948.9 Da    PI: 8.6516
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc02g085580.2.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.62.2e-056688123
                        EEETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                        ++C++C+k F r  nL+ H r H
  Solyc02g085580.2.1 66 FVCEICSKGFQRDQNLQLHRRGH 88
                        89*******************88 PP
2zf-C2H214.40.00011142164123
                         EEETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                         +kC +C+k +  +s+Lk H + +
  Solyc02g085580.2.1 142 WKCDKCSKKYAVQSDLKAHSKIC 164
                         58*****************9876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.8E-76588No hitNo description
Gene3DG3DSA:3.30.160.606.3E-56588IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0366688IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.8876688IPR007087Zinc finger, C2H2
PROSITE patternPS0002806888IPR007087Zinc finger, C2H2
SMARTSM00355230107137IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.606.0E-5130163IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.8E-7137162No hitNo description
PROSITE profilePS501578.746142170IPR007087Zinc finger, C2H2
SMARTSM0035566142162IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009937Biological Processregulation of gibberellic acid mediated signaling pathway
GO:0010029Biological Processregulation of seed germination
GO:0010431Biological Processseed maturation
GO:0005634Cellular Componentnucleus
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 528 aa     Download sequence    Send to blast
MPADPDNSSA MNDSTGSGEA SVSSSGNQVV PLKESAKKKR NLPGMPDPDA EVIALSPTTL  60
LATNRFVCEI CSKGFQRDQN LQLHRRGHNL PWKLRQRSSN EVKKRVYVCP ESSCVHHDPS  120
RALGDLTGIK KHFCRKHGEK KWKCDKCSKK YAVQSDLKAH SKICGTREYK CDCGTLFSRR  180
DSFITHRAFC DALAQESAKT LPEKPPSTNE EPKTQAVASS SPPPSPPAPP PATESQPPPP  240
PPAAPKSLMT PTVPPSTAVM SFASSVQNRE LRENPVTNSA GAATKQVVEE AAVVASLTGN  300
CSSSCSNGSS SSNVFGSLFA SSTASGSLPS QAPVFSDIFR AMAPEHTLEM APPSSTEPIS  360
LGLAMSHSSS IFRPAGQERR QYAPAPQPAM SATALLQKAA QMGAAATSSS FLRGIGVMSS  420
TSSSNGHQEW SGRPSDANGA SLAAGLGLGL PCDAGSGLKE LMLGTPSVFG PKHPTLDLLG  480
LGMAASVGPS PGLSALLTSM GSNLDMVTSA GSFGSADFSG KDLGRNS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C1e-33138199364Zinc finger protein JACKDAW
5b3h_F1e-33138199364Zinc finger protein JACKDAW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Les.174802e-74flower| fruit| leaf
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Strongly up-regulated during seed development. {ECO:0000269|PubMed:21571950}.
UniprotTISSUE SPECIFICITY: At 3 days post anthesis (DPA), expressed in the chalazal endosperm region. By 6 DPA, expressed in the endosperm and embryo. In fully germinated seed, strongest expression in the root tip and not detected in the cotyledons. In 4-days old seedlings, restricted to the vasculature of the cotyledons, the shoot apical meristem region, and the root tip. By 8 days, restricted to newly emerged leaves. {ECO:0000269|PubMed:21571950}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor promoting the transition to germination by regulating light and hormonal signaling during seed maturation (PubMed:21571950). Acts as a positive regulator of phytochrome and/or gibberellin action (PubMed:21571950, PubMed:25035403). {ECO:0000269|PubMed:21571950, ECO:0000269|PubMed:25035403}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00592DAPTransfer from AT5G66730Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc02g085580.2.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2154880.0Solanum lycopersicum chromosome 2 clone C02SLm0097L01, complete sequence
GenBankAC2154920.0Solanum lycopersicum chromosome 2 clone C02SLm0128E12, complete sequence
GenBankAC2265040.0Solanum lycopersicum chromosome 2 clone C02HBa0106H06, complete sequence
GenBankAF2733330.0Lycopersicon esculentum clone BAC 19, complete sequence
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004232386.10.0protein indeterminate-domain 2 isoform X1
SwissprotQ9LVQ71e-170IDD1_ARATH; Zinc finger protein ENHYDROUS
TrEMBLA0A3Q7F7K40.0A0A3Q7F7K4_SOLLC; Uncharacterized protein
STRINGPGSC0003DMT4000330390.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA10324350
Representative plantOGRP9516242
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G66730.11e-132C2H2-like zinc finger protein
Publications ? help Back to Top
  1. Ku HM,Vision T,Liu J,Tanksley SD
    Comparing sequenced segments of the tomato and Arabidopsis genomes: large-scale duplication followed by selective gene loss creates a network of synteny.
    Proc. Natl. Acad. Sci. U.S.A., 2000. 97(16): p. 9121-6
    [PMID:10908680]
  2. Fukazawa J, et al.
    DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of gibberellin homeostasis and signaling in Arabidopsis.
    Plant Cell, 2014. 26(7): p. 2920-38
    [PMID:25035403]
  3. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]