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 PGSC0003DMP400028388
Organism
Solanum tuberosum
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
Family AP2
Protein Properties Length: 513aa    MW: 56403.8 Da    PI: 7.474
Description AP2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400028388genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP236.61.1e-11104160155
                   AP2   1 sgykGVrwdkkrgrWvAeIrd.pseng..kr.krfslgkfgtaeeAakaaiaarkkleg 55 
                           s y+GV++++++gr++A+++d  +     ++ k  + g ++ +e+Aa+a++ a++k++g
  PGSC0003DMP400028388 104 SIYRGVTRHRWTGRYEAHLWDnSCR-RegQTrKGRQ-GGYDKEEKAARAYDLAALKYWG 160
                           57*******************4444.2455535555.779999**************98 PP
2AP243.11e-13203254155
                   AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                           s y+GV+++++ grW A+I  +     +k  +lg+f t eeAa a++ a+ k++g
  PGSC0003DMP400028388 203 SIYRGVTRHHQHGRWQARIGRVAG---NKDLYLGTFSTQEEAAGAYDIAAIKFRG 254
                           57****************988532...5************************998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF008473.4E-9104160IPR001471AP2/ERF domain
SuperFamilySSF541714.05E-15104170IPR016177DNA-binding domain
CDDcd000182.12E-19104170No hitNo description
PROSITE profilePS5103217.385105168IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.102.4E-12105169IPR001471AP2/ERF domain
SMARTSM003806.4E-23105174IPR001471AP2/ERF domain
PRINTSPR003674.2E-6106117IPR001471AP2/ERF domain
SuperFamilySSF541712.16E-17203263IPR016177DNA-binding domain
CDDcd000182.67E-24203264No hitNo description
PfamPF008476.3E-9203254IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.101.3E-17204262IPR001471AP2/ERF domain
PROSITE profilePS5103218.795204262IPR001471AP2/ERF domain
SMARTSM003802.0E-32204268IPR001471AP2/ERF domain
PRINTSPR003674.2E-6244264IPR001471AP2/ERF domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 513 aa     Download sequence    Send to blast
MIKNWLRNNP NSTTTTTTTP SLLQDDKKEG DVVGVAGGGS SGTNAQSLSL SMSTGGDGGG  60
ENSCSSENKQ EIVNGNNGST IDGQISGAIV APKKSIDTFG QRTSIYRGVT RHRWTGRYEA  120
HLWDNSCRRE GQTRKGRQGG YDKEEKAARA YDLAALKYWG PTTTTNFPIS NYEKELEEMK  180
NMTRQEYVAS LRRKSSGFSR GASIYRGVTR HHQHGRWQAR IGRVAGNKDL YLGTFSTQEE  240
AAGAYDIAAI KFRGLNAVTN FEINRYDVKS ILESSTLPIG GAAKRLKDVE QAEIALNYQR  300
ASQENIGTTH LMNGSMSTYG AGHCWPNITL QQAQPLSAMH YNNPYNSQQR LWCKQEVQDH  360
DLTSQNFQDF QLGNAHNYLM GLDNSSSSSM EQNNVTYHQG VGYASNNNNH HGGGGFVLPQ  420
LNGSSYGGEN DNEVKQLQLG THENIFGNYY HSQPTTSNDS VKVSNTLYDH QESACNNNNW  480
MSTDVPMALA SRTSTMAVCH SAAPTFTMWN DS*
Functional Description ? help Back to Top
Source Description
UniProtProbably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity). Master regulator of basal/root fate. Essential for root quiescent center (QC) and columella specification, stem cell activity, as well as for establishment of the stem cell niche during embryogenesis. Modulates the root polar auxin transport by regulating the distribution of PIN genes. Essential role in respecifying pattern and polarity in damaged roots. Direct target of the transcriptional corepressor TPL. Expression levels and patterns regulated post-transcriptionally by root meristem growth factors (RGFs). {ECO:0000250, ECO:0000269|PubMed:15454085, ECO:0000269|PubMed:15635403, ECO:0000269|PubMed:16424342, ECO:0000269|PubMed:20190735}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400028388
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin accumulation. {ECO:0000269|PubMed:15454085}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9755230.0HG975523.1 Solanum lycopersicum chromosome ch11, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006353288.10.0PREDICTED: AP2-like ethylene-responsive transcription factor AIL1
SwissprotQ5YGP71e-134PLET2_ARATH; AP2-like ethylene-responsive transcription factor PLT2
TrEMBLM1BC690.0M1BC69_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000418810.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA70992131
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G51190.11e-136AP2 family protein
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Xu X, et al.
    Genome sequence and analysis of the tuber crop potato.
    Nature, 2011. 475(7355): p. 189-95
    [PMID:21743474]
  3. Lee DK,Sieburth LE
    The bps signal: embryonic arrest from an auxin-independent mechanism in bypass triple mutants.
    Plant Signal Behav, 2012. 7(6): p. 698-700
    [PMID:22580686]
  4. Hong LW,Yan DW,Liu WC,Chen HG,Lu YT
    TIME FOR COFFEE controls root meristem size by changes in auxin accumulation in Arabidopsis.
    J. Exp. Bot., 2014. 65(1): p. 275-86
    [PMID:24277277]
  5. Tian H,Jia Y,Niu T,Yu Q,Ding Z
    The key players of the primary root growth and development also function in lateral roots in Arabidopsis.
    Plant Cell Rep., 2014. 33(5): p. 745-53
    [PMID:24504658]
  6. Zhao Q, et al.
    Sulfur nutrient availability regulates root elongation by affecting root indole-3-acetic acid levels and the stem cell niche.
    J Integr Plant Biol, 2014. 56(12): p. 1151-63
    [PMID:24831283]
  7. Huang JB, et al.
    ROP3 GTPase contributes to polar auxin transport and auxin responses and is important for embryogenesis and seedling growth in Arabidopsis.
    Plant Cell, 2014. 26(9): p. 3501-18
    [PMID:25217509]
  8. Yang S, et al.
    The Arabidopsis SWI2/SNF2 Chromatin Remodeling ATPase BRAHMA Targets Directly to PINs and Is Required for Root Stem Cell Niche Maintenance.
    Plant Cell, 2015. 27(6): p. 1670-80
    [PMID:25991732]
  9. Jia Y, et al.
    The Arabidopsis thaliana elongator complex subunit 2 epigenetically affects root development.
    J. Exp. Bot., 2015. 66(15): p. 4631-42
    [PMID:25998905]
  10. Zhang M, et al.
    A tetratricopeptide repeat domain-containing protein SSR1 located in mitochondria is involved in root development and auxin polar transport in Arabidopsis.
    Plant J., 2015. 83(4): p. 582-99
    [PMID:26072661]
  11. Shinohara H,Mori A,Yasue N,Sumida K,Matsubayashi Y
    Identification of three LRR-RKs involved in perception of root meristem growth factor in Arabidopsis.
    Proc. Natl. Acad. Sci. U.S.A., 2016. 113(14): p. 3897-902
    [PMID:27001831]
  12. Ou Y, et al.
    RGF1 INSENSITIVE 1 to 5, a group of LRR receptor-like kinases, are essential for the perception of root meristem growth factor 1 in Arabidopsis thaliana.
    Cell Res., 2016. 26(6): p. 686-98
    [PMID:27229312]
  13. Santuari L, et al.
    The PLETHORA Gene Regulatory Network Guides Growth and Cell Differentiation in Arabidopsis Roots.
    Plant Cell, 2016. 28(12): p. 2937-2951
    [PMID:27920338]
  14. Promchuea S,Zhu Y,Chen Z,Zhang J,Gong Z
    ARF2 coordinates with PLETHORAs and PINs to orchestrate ABA-mediated root meristem activity in Arabidopsis .
    J Integr Plant Biol, 2017. 59(1): p. 30-43
    [PMID:28074634]
  15. Du Y,Scheres B
    PLETHORA transcription factors orchestrate de novo organ patterning during Arabidopsis lateral root outgrowth.
    Proc. Natl. Acad. Sci. U.S.A., 2017. 114(44): p. 11709-11714
    [PMID:29078398]
  16. Bustillo-Avendaño E, et al.
    Regulation of Hormonal Control, Cell Reprogramming, and Patterning during De Novo Root Organogenesis.
    Plant Physiol., 2018. 176(2): p. 1709-1727
    [PMID:29233938]