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_02683.1_g00005.1
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 HD-ZIP
Protein Properties Length: 674aa    MW: 73610.4 Da    PI: 6.6143
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_02683.1_g00005.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox61.81e-193691156
                             TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
                 Homeobox  1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56
                             +++ +++t++q+++Le+ F+++++p+ ++r +L+++lgL  rq+k+WFqNrR++ k
  Rsa1.0_02683.1_g00005.1 36 KKRYHRHTAQQIQRLESSFKECPHPDDKQRNQLSRELGLAPRQIKFWFQNRRTQLK 91
                             688999**********************************************9877 PP
2START112.75.4e-362064082206
                              HHHHHHHHHHHHHHHC-TT-EEEE....EXCCTTEEEEEEESSS.......SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S CS
                    START   2 laeeaaqelvkkalaeepgWvkss....esengdevlqkfeeskv......dsgealrasgvvdmvlallveellddkeqWdetla 77 
                              +a++a+qel+++   +ep+W++      e +n   +   f++s++       ++ea+r sg+v+m+++ lv    d +     + +
  Rsa1.0_02683.1_g00005.1 206 IALTATQELLRLLNTNEPLWTRADgdgrEVLNLGSYENLFPRSGNrgknhnLRTEASRSSGIVFMNAMSLV----DMS-----NGE 282
                              67889999999999999999999988877777777777777777788889999999999999999999444....333.....222 PP

                              EEEEEEEECTT...EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECT CS
                    START  78 kaetlevissg...galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksn 159
                              + + +     g   gal+lm+ el +lsplv+ R+f  +Ry++  ++g+w++v vS   +q+++ +s++ +   +pSg+li++++n
  Rsa1.0_02683.1_g00005.1 283 SSSRMG----GtyeGALHLMYEELEVLSPLVAtREFCELRYCQMIEQGSWIVVNVSYHLPQFVS-QSQSYK---FPSGCLIQDMPN 360
                              222222....12449*************************************************.677776...************ PP

                              CEEEEEEEE-EE--SSXX.HHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
                    START 160 ghskvtwvehvdlkgrlp.hwllrslvksglaegaktwvatlqrqcek 206
                              g+skvtwvehv+ +++ p h+l+r ++++g+a+ga +wv tlqr ce+
  Rsa1.0_02683.1_g00005.1 361 GYSKVTWVEHVETEEKEPtHELYREIIHQGVAFGAERWVTTLQRMCER 408
                              **********************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466898.36E-202093IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.602.8E-222187IPR009057Homeodomain-like
PROSITE profilePS5007118.0263393IPR001356Homeobox domain
SMARTSM003891.1E-183497IPR001356Homeobox domain
PfamPF000462.9E-173691IPR001356Homeobox domain
CDDcd000866.88E-193694No hitNo description
PROSITE patternPS0002706891IPR017970Homeobox, conserved site
PROSITE profilePS5084835.654196411IPR002913START domain
SuperFamilySSF559611.79E-25197410No hitNo description
CDDcd088752.47E-85200407No hitNo description
SMARTSM002341.4E-22205408IPR002913START domain
PfamPF018524.1E-29293408IPR002913START domain
Gene3DG3DSA:3.30.530.201.1E-5299406IPR023393START-like domain
SuperFamilySSF559613.85E-18429661No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0008289Molecular Functionlipid binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 674 aa     Download sequence    Send to blast
MSFVGGVGGS GSGGGEGGGG GGSSQHHDGT ETDRKKKRYH RHTAQQIQRL ESSFKECPHP  60
DDKQRNQLSR ELGLAPRQIK FWFQNRRTQL KAQHERADNN ALKAENDKIR CENIAIREAL  120
KHTICPNCGG PPVTEDPYFD EHKLRIENAH LRDENVNGCI KVHGKTNLLP GPSLDFDLLP  180
GSSSMHSQQP NLATISDMDK PLMNDIALTA TQELLRLLNT NEPLWTRADG DGREVLNLGS  240
YENLFPRSGN RGKNHNLRTE ASRSSGIVFM NAMSLVDMSN GESSSRMGGT YEGALHLMYE  300
ELEVLSPLVA TREFCELRYC QMIEQGSWIV VNVSYHLPQF VSQSQSYKFP SGCLIQDMPN  360
GYSKVTWVEH VETEEKEPTH ELYREIIHQG VAFGAERWVT TLQRMCERFA SLLAPATSSR  420
DLGGVIPSPE GKRSMMRLAH RMVSNYCISV SRSNNTHSTI VAELNEVGVR VTAHKSPEPN  480
GTILSAATTF WLPNSPQNVF NFLKDERTRP QWDVLSNRNA VQEVAHIANG SHPGCCVSVL  540
RASNASQSNN MLILQETSID SSGALVVYSP VDLSALNIAM SGDDTSYIPL LSSGFAISPD  600
GNHSSGEQGG GGASTSSGFG GGSLITVGFQ IMVSNLPSAK LNMESVETVN NLIGTTVQQI  660
KTGLNNCPSG STTA
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1922SGSGGGEGGGGGGS
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor which acts as positive regulator of drought stress tolerance. Can transactivate CIPK3, NCED3 and ERECTA (PubMed:18451323). Transactivates several cell-wall-loosening protein genes by directly binding to HD motifs in their promoters. These target genes play important roles in coordinating cell-wall extensibility with root development and growth (PubMed:24821957). Transactivates CYP74A/AOS, AOC3, OPR3 and 4CLL5/OPCL1 genes by directly binding to HD motifs in their promoters. These target genes are involved in jasmonate (JA) biosynthesis, and JA signaling affects root architecture by activating auxin signaling, which promotes lateral root formation (PubMed:25752924). Acts as negative regulator of trichome branching (PubMed:16778018, PubMed:24824485). Required for the establishment of giant cell identity on the abaxial side of sepals (PubMed:23095885). May regulate cell differentiation and proliferation during root and shoot meristem development (PubMed:25564655). {ECO:0000269|PubMed:16778018, ECO:0000269|PubMed:18451323, ECO:0000269|PubMed:23095885, ECO:0000269|PubMed:24821957, ECO:0000269|PubMed:24824485, ECO:0000269|PubMed:25564655, ECO:0000269|PubMed:25752924}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_02683.1_g00005.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankDQ1668210.0DQ166821.1 Brassica napus baby boom interacting protein 1A (BIP1A) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018457296.10.0PREDICTED: homeobox-leucine zipper protein HDG11-like
SwissprotQ9FX310.0HDG11_ARATH; Homeobox-leucine zipper protein HDG11
TrEMBLA0A3P6GYP50.0A0A3P6GYP5_BRAOL; Uncharacterized protein
STRINGBra015996.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM30042665
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G73360.10.0homeodomain GLABROUS 11
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. Khosla A, et al.
    HD-Zip Proteins GL2 and HDG11 Have Redundant Functions in Arabidopsis Trichomes, and GL2 Activates a Positive Feedback Loop via MYB23.
    Plant Cell, 2014. 26(5): p. 2184-2200
    [PMID:24824485]
  3. Horstman A, et al.
    AIL and HDG proteins act antagonistically to control cell proliferation.
    Development, 2015. 142(3): p. 454-64
    [PMID:25564655]
  4. Cai XT,Xu P,Wang Y,Xiang CB
    Activated expression of AtEDT1/HDG11 promotes lateral root formation in Arabidopsis mutant edt1 by upregulating jasmonate biosynthesis.
    J Integr Plant Biol, 2015. 57(12): p. 1017-30
    [PMID:25752924]
  5. Yu LH, et al.
    Arabidopsis EDT1/HDG11 improves drought and salt tolerance in cotton and poplar and increases cotton yield in the field.
    Plant Biotechnol. J., 2016. 14(1): p. 72-84
    [PMID:25879154]
  6. Zhu Z, et al.
    Overexpression of AtEDT1/HDG11 in Chinese Kale (Brassica oleracea var. alboglabra) Enhances Drought and Osmotic Stress Tolerance.
    Front Plant Sci, 2016. 7: p. 1285
    [PMID:27625663]
  7. Liu Y, et al.
    Overexpression of AtEDT1 promotes root elongation and affects medicinal secondary metabolite biosynthesis in roots of transgenic Salvia miltiorrhiza.
    Protoplasma, 2017. 254(4): p. 1617-1625
    [PMID:27915455]
  8. Ueda M, et al.
    Transcriptional integration of paternal and maternal factors in the Arabidopsis zygote.
    Genes Dev., 2017. 31(6): p. 617-627
    [PMID:28404632]
  9. Lung SC, et al.
    Arabidopsis ACYL-COA-BINDING PROTEIN1 interacts with STEROL C4-METHYL OXIDASE1-2 to modulate gene expression of homeodomain-leucine zipper IV transcription factors.
    New Phytol., 2018. 218(1): p. 183-200
    [PMID:29288621]
  10. Zheng G, et al.
    Over-Expression of Arabidopsis EDT1 Gene Confers Drought Tolerance in Alfalfa (Medicago sativa L.).
    Front Plant Sci, 2017. 8: p. 2125
    [PMID:29326737]