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 Solyc11g017140.1.1
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: 486aa    MW: 54307.7 Da    PI: 6.5721
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc11g017140.1.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H221.18e-07234255223
                         EETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2   2 kCpdCgksFsrksnLkrHirtH 23 
                          C++Cgk F+r  nL+ H+r H
  Solyc11g017140.1.1 234 FCTICGKGFKRDANLRMHMRGH 255
                         6*******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576672.08E-5231258No hitNo description
SMARTSM003550.0026233255IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015712.03233260IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.607.6E-6234284IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS000280235255IPR007087Zinc finger, C2H2
SMARTSM0035562282315IPR015880Zinc finger, C2H2-like
SMARTSM0035525320342IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010044Biological Processresponse to aluminum ion
GO:0010447Biological Processresponse to acidic pH
GO:0005634Cellular Componentnucleus
GO:0003676Molecular Functionnucleic acid binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 486 aa     Download sequence    Send to blast
MPSDNHSFTN LNLHEQKWEG SSYLDQEIRI EQQFTGFAKP KHTSEMDQQG NQNHDTTRIH  60
DWDPRALLNN LSFLEQKIHQ LQELVHLIVG RRGQDEVQGN DLIVQQQQLI TADLTSIIVQ  120
LISTAGSLLP TMKYTLSSAI PAASQLGQVG GVTVPSTAGT SAGGLTCNDG VAKLEDQSNH  180
IDQLRDCGIE HNHAADEHEL KDEDEAEEEE NLPPGSYEIL QLEKEEILAP HTHFCTICGK  240
GFKRDANLRM HMRGHGDEYK TPAALAKPHK EPSSEPTLIK RYSCPYVGCK RNKEHKKFQP  300
LKTILCVKNH YKRTHCEKAY TCSRCNIKKF SVIADLKTHE KHCGKDKWLC SCGTTFSRKD  360
KLFGHISLFQ GHTPAVSPDE TKGSAGTSDR GQTGEVTMKA RQENYKVNAS LGNEFQNPGV  420
VKECPYNPSS YFSPLNFDTS NLNGFQEFPR PPFDESDSSF SFLLSGSCEY PPHKAAKFMS  480
SSEME*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Les.71230.0cell culture| flower| 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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00196ampDAPTransfer from AT1G34370Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc11g017140.1.1
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
PlantRegMap-Retrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1717340.0Solanum lycopersicum chromosome 11 clone C11HBa0064J13, complete sequence
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004250372.10.0protein SENSITIVE TO PROTON RHIZOTOXICITY 1
SwissprotQ9C8N50.0STOP1_ARATH; Protein SENSITIVE TO PROTON RHIZOTOXICITY 1
TrEMBLA0A3Q7ISS30.0A0A3Q7ISS3_SOLLC; Uncharacterized protein
STRINGSolyc11g017140.1.10.0(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-165C2H2 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]