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_06168.1_g00001.1
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: 722aa    MW: 78624.4 Da    PI: 6.8418
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_06168.1_g00001.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox59.55.4e-193691156
                             TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
                 Homeobox  1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56
                             +++ +++t++q+++Le+ F+++++p+ ++r  L+k+lgL  rq+k+WFqNrR++ k
  Rsa1.0_06168.1_g00001.1 36 KKRYHRHTAQQIQRLESSFRECPHPDDKQRNLLSKELGLAPRQIKFWFQNRRTQLK 91
                             688999**********************************************9877 PP
2START150.61.4e-472254462206
                              HHHHHHHHHHHHHHHC-TT-EEEE....EXCCTTEEEEEEESSS.......SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S CS
                    START   2 laeeaaqelvkkalaeepgWvkss....esengdevlqkfeeskv......dsgealrasgvvdmvlallveellddkeqWdetla 77 
                              +a++a+qel+++   +ep+W +      + +n   +   f++s +       ++ea+r sg+v+m+++ lv  ++d++ +W e ++
  Rsa1.0_06168.1_g00001.1 225 IALTAMQELLRLFNTNEPLWNRADgcsrDVLNLGSYENVFPRSSNrgknhnLRIEASRSSGIVFMNAMSLVDMFMDSA-KWGELFP 309
                              6899*****************999898877777777777777666788899***************************.****999 PP

                              ....EEEEEEEECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEE CS
                    START  78 ....kaetlevissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgi 152
                                  + + l+v+ssg      gal+lm+ e+ +lsplv+ R+f  +Ry++q ++g+w++v vS   +q+++ +s++ R   +pSg+
  Rsa1.0_06168.1_g00001.1 310 sivaASKPLAVVSSGmggtyeGALHLMYEEMEVLSPLVAtREFCELRYCQQIEQGSWIVVNVSYHLPQFVS-HSHSYR---FPSGC 391
                              999999*****************************************************************.999999...***** PP

                              EEEEECTCEEEEEEEE-EE--SSXX.HHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
                    START 153 liepksnghskvtwvehvdlkgrlp.hwllrslvksglaegaktwvatlqrqcek 206
                              li++++ng+skvtwveh++ +++   h+l+r +v++g+a+ga +wv tlqr ce+
  Rsa1.0_06168.1_g00001.1 392 LIQDMPNGYSKVTWVEHTETEEKEAvHELYREMVHKGIAFGAERWVTTLQRMCER 446
                              ********************987655***************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.606.9E-212287IPR009057Homeodomain-like
SuperFamilySSF466891.63E-192897IPR009057Homeodomain-like
PROSITE profilePS5007117.5243393IPR001356Homeobox domain
SMARTSM003891.2E-173497IPR001356Homeobox domain
CDDcd000862.19E-183694No hitNo description
PfamPF000461.8E-163691IPR001356Homeobox domain
PROSITE patternPS0002706891IPR017970Homeobox, conserved site
PROSITE profilePS5084846.387215449IPR002913START domain
SuperFamilySSF559611.07E-32216448No hitNo description
CDDcd088753.22E-103219445No hitNo description
SMARTSM002346.8E-37224446IPR002913START domain
PfamPF018525.0E-41225446IPR002913START domain
Gene3DG3DSA:3.30.530.208.8E-7330446IPR023393START-like domain
SuperFamilySSF559614.58E-18467641No hitNo description
SuperFamilySSF559614.58E-18670709No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009828Biological Processplant-type cell wall loosening
GO:0010091Biological Processtrichome branching
GO:0005634Cellular Componentnucleus
GO:0000976Molecular Functiontranscription regulatory region sequence-specific DNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0008289Molecular Functionlipid binding
Sequence ? help Back to Top
Protein Sequence    Length: 722 aa     Download sequence    Send to blast
MSFVVGGSGS GGGDGGGGGG GGSQRHDGGS ENDRKKKRYH RHTAQQIQRL ESSFRECPHP  60
DDKQRNLLSK ELGLAPRQIK FWFQNRRTQL KAQHERADNS ALKAENDKIR CENIAIREAI  120
KHAICPNCGG PPVSEDPYLD EQKLRMENAH LREELERMST VASKYMGRPI TSHISTLHPM  180
HISPLDLSMT SLTGPSLDFD LLPGSSMSTS NFAVSDMDKP IMNDIALTAM QELLRLFNTN  240
EPLWNRADGC SRDVLNLGSY ENVFPRSSNR GKNHNLRIEA SRSSGIVFMN AMSLVDMFMD  300
SAKWGELFPS IVAASKPLAV VSSGMGGTYE GALHLMYEEM EVLSPLVATR EFCELRYCQQ  360
IEQGSWIVVN VSYHLPQFVS HSHSYRFPSG CLIQDMPNGY SKVTWVEHTE TEEKEAVHEL  420
YREMVHKGIA FGAERWVTTL QRMCERYASL LAPAASSREL GGVIPSPEGK RSMMRLAHRM  480
VSNYCISVSR SNNTRSTVVA ELNDVGVRVT AHKSPEPNGT VLSAATTFWL PNSPQNVFNF  540
LKDERTRPQW DVLSNSNAVQ EVAHIANGSH PGCCISVLRA SSASQSNNML ILQESSIDSS  600
GALVVYSPVD LSALNIAMNG DDTSYIPLLS SGFAISPDGN NNSLTAEQGG GGASTSSGRS  660
SSSSGFGGGG SLITVGFQIM VSNLPSAKLN MESVETVNNL IGTTVHQIKT GLNNCPSASA  720
TA
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1922SGGGDGGGGGGGGS
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00232DAPTransfer from AT1G73360Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_06168.1_g00001.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankDQ1824890.0DQ182489.1 Brassica napus baby boom interacting protein 1B mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018445004.10.0PREDICTED: homeobox-leucine zipper protein HDG11 isoform X1
SwissprotQ9FX310.0HDG11_ARATH; Homeobox-leucine zipper protein HDG11
TrEMBLA0A0D3CWW80.0A0A0D3CWW8_BRAOL; Uncharacterized protein
STRINGBo6g087810.10.0(Brassica oleracea)
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]