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 Rsa1.0_02514.1_g00003.1
Organism
Raphanus sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family C2H2
Protein Properties Length: 504aa    MW: 56188.8 Da    PI: 6.3961
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_02514.1_g00003.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H221.18.4e-07253274223
                              EETTTTEEESSHHHHHHHHHHT CS
                  zf-C2H2   2 kCpdCgksFsrksnLkrHirtH 23 
                               C++Cgk F+r  nL+ H+r H
  Rsa1.0_02514.1_g00003.1 253 FCTICGKGFKRDANLRMHMRGH 274
                              6*******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576672.32E-5250277No hitNo description
SMARTSM003550.0026252274IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015712.03252279IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.607.0E-6253305IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS000280254274IPR007087Zinc finger, C2H2
SMARTSM0035550303336IPR015880Zinc finger, C2H2-like
SMARTSM0035545341363IPR015880Zinc 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: 504 aa     Download sequence    Send to blast
METDDDLCQN NWGGSSSSSS SKLREPVCFT SQQHKWEDAS ILDYEMGMDE EPVFDHMKAS  60
SSHDNNNNNN KSNGVHSHVD FLQGVRAQAW DPRTMLSNLS FMEEKIHELQ DLVHLIVGRN  120
GQLQSRQEQL ITTDLTSIII QLISTAGSLL PSVKHNNMST TTAPGSALFP YPREANNLAS  180
QTLNNNNNNS CEFDLPLPLP KQPSVVEERE SHVVEEHEMK DEDDVEEGEN LLPGSYEILQ  240
LEKEEILAPH THFCTICGKG FKRDANLRMH MRGHGDEYKT PAALAKPNKE ALPGSEPLLI  300
KRYSCPFPGC KRNKDHKKFQ PLKTILCVKN HYKRTHCDKS FTCSRCHTKK FSVIADLKTH  360
EKHCGKNKWL CSCGTTFSRK DKLFGHIALF QGHTPAIPLE ETKPSVQRGS SDCGNNNTGM  420
IGFNLGSATN ANQETSQPGF MDGKIRFEDS FSPLSFDTCN FGGFHEFPRP MFDDSDSSFQ  480
MLLSSACGLS PRNGDGGSAS NTSL
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
PlantRegMapRsa1.0_02514.1_g00003.1
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
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2325130.0AC232513.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB065E07, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018451688.10.0PREDICTED: protein SENSITIVE TO PROTON RHIZOTOXICITY 1-like
SwissprotQ9C8N50.0STOP1_ARATH; Protein SENSITIVE TO PROTON RHIZOTOXICITY 1
TrEMBLA0A0D3DKL10.0A0A0D3DKL1_BRAOL; Uncharacterized protein
STRINGBo8g027000.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM69772644
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G34370.20.0C2H2 family protein
Publications ? help Back to Top
  1. 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]
  2. 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]
  3. 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]
  4. Balzergue C, et al.
    Low phosphate activates STOP1-ALMT1 to rapidly inhibit root cell elongation.
    Nat Commun, 2017. 8: p. 15300
    [PMID:28504266]
  5. 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]
  6. Jiang F, et al.
    Identification and characterization of suppressor mutants of stop1.
    BMC Plant Biol., 2017. 17(1): p. 128
    [PMID:28738784]
  7. 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]
  8. 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]
  9. 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]