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 Solyc06g065440.1.1
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 C2H2
Protein Properties Length: 352aa    MW: 39645.2 Da    PI: 8.1121
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc06g065440.1.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H221.75.4e-07183204223
                         EETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2   2 kCpdCgksFsrksnLkrHirtH 23 
                          C++Cgk F+r  nL+ H+r H
  Solyc06g065440.1.1 183 FCTICGKGFKRDANLRMHMRGH 204
                         6*******************98 PP
2zf-C2H210.80.0015301316621
                         TTEEESSHHHHHHHHH CS
             zf-C2H2   6 CgksFsrksnLkrHir 21 
                         Cg++Fsrk+ L  Hi+
  Solyc06g065440.1.1 301 CGTTFSRKDKLFGHIS 316
                         **************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.41E-5181206No hitNo description
PROSITE profilePS5015712.03182209IPR007087Zinc finger, C2H2
SMARTSM003550.0026182204IPR015880Zinc finger, C2H2-like
PfamPF128746.5E-4183204No hitNo description
Gene3DG3DSA:3.30.160.601.5E-5183233IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS000280184204IPR007087Zinc finger, C2H2
SMARTSM00355230231264IPR015880Zinc finger, C2H2-like
SMARTSM0035533269291IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 352 aa     Download sequence    Send to blast
MEQQANQSNE NHDFAGLQEW DPRAMLKSMS FLEQKIHQLR ELVRIIVDHR SLAGIQGSDL  60
SIQQQQLITA DLTSIIIQLI STAGSLLPTV KHQANPPTKR LEQFGGASVP SETGTNIGAL  120
TCNGYVPKAK DQLSHVDQMG DCFVDEHEAK DEDEPHEEEN LPPGSYEILQ LEKEEILAPH  180
THFCTICGKG FKRDANLRMH MRGHGDEYKT SAALIKPQKD SSSGTTLIKR YSCPCIGCKR  240
NKEHKKFQPL KTILCVKNHY RRTHCEKRYA CSRCNLKKFS VIADLRTHEK HCGKDKWLCS  300
CGTTFSRKDK LFGHISLFQG HTPAIPLDET KGFAQTSNQG QPMMQLQRLE I*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Les.167190.0flower| fruit| leaf| root
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots (e.g. root tips and lateral roots), leaves, flowers (e.g. stigma, sepal, anther, and filament), stems, siliques and cotyledons. {ECO:0000269|PubMed:23935008}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. Together with STOP2, plays a critical role in tolerance to major stress factors in acid soils such as proton H(+) and aluminum ion Al(3+). Required for the expression of genes in response to acidic stress (e.g. ALMT1 and MATE), and Al-activated citrate exudation. {ECO:0000269|PubMed:17535918, ECO:0000269|PubMed:18826429, ECO:0000269|PubMed:19321711, ECO:0000269|PubMed:23935008}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc06g065440.1.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By shock H(+) and Al(3+) treatments. {ECO:0000269|PubMed:17535918}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010322757.20.0LOW QUALITY PROTEIN: protein SENSITIVE TO PROTON RHIZOTOXICITY 1-like
SwissprotQ9C8N51e-152STOP1_ARATH; Protein SENSITIVE TO PROTON RHIZOTOXICITY 1
TrEMBLA0A3Q7GYX70.0A0A3Q7GYX7_SOLLC; Uncharacterized protein
STRINGSolyc06g065440.1.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA47542441
Representative plantOGRP8301663
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G34370.21e-146C2H2 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. Kobayashi Y, et al.
    Molecular and physiological analysis of Al³⁺ and H⁺ rhizotoxicities at moderately acidic conditions.
    Plant Physiol., 2013. 163(1): p. 180-92
    [PMID:23839867]
  3. Yokosho K,Yamaji N,Ma JF
    Global transcriptome analysis of Al-induced genes in an Al-accumulating species, common buckwheat (Fagopyrum esculentum Moench).
    Plant Cell Physiol., 2014. 55(12): p. 2077-91
    [PMID:25273892]
  4. Geng X, et al.
    LEUNIG_HOMOLOG transcriptional co-repressor mediates aluminium sensitivity through PECTIN METHYLESTERASE46-modulated root cell wall pectin methylesterification in Arabidopsis.
    Plant J., 2017. 90(3): p. 491-504
    [PMID:28181322]
  5. Balzergue C, et al.
    Low phosphate activates STOP1-ALMT1 to rapidly inhibit root cell elongation.
    Nat Commun, 2017. 8: p. 15300
    [PMID:28504266]
  6. Pelagio-Flores R,Esparza-Reynoso S,Garnica-Vergara A,López-Bucio J,Herrera-Estrella A
    Trichoderma-Induced Acidification Is an Early Trigger for Changes in Arabidopsis Root Growth and Determines Fungal Phytostimulation.
    Front Plant Sci, 2017. 8: p. 822
    [PMID:28567051]
  7. Jiang F, et al.
    Identification and characterization of suppressor mutants of stop1.
    BMC Plant Biol., 2017. 17(1): p. 128
    [PMID:28738784]
  8. Daspute AA, et al.
    Transcriptional Regulation of Aluminum-Tolerance Genes in Higher Plants: Clarifying the Underlying Molecular Mechanisms.
    Front Plant Sci, 2017. 8: p. 1358
    [PMID:28848571]
  9. Sharma A,Wai CM,Ming R,Yu Q
    Diurnal Cycling Transcription Factors of Pineapple Revealed by Genome-Wide Annotation and Global Transcriptomic Analysis.
    Genome Biol Evol, 2017. 9(9): p. 2170-2190
    [PMID:28922793]
  10. Zhang Y, et al.
    The Cell Cycle Checkpoint Regulator ATR Is Required for Internal Aluminum Toxicity-Mediated Root Growth Inhibition in Arabidopsis.
    Front Plant Sci, 2018. 9: p. 118
    [PMID:29491872]