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 Lj3g3v1541360.1
Organism
Lotus japonicus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Loteae; Lotus
Family HD-ZIP
Protein Properties Length: 728aa    MW: 79980.5 Da    PI: 6.2507
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lj3g3v1541360.1genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox542.9e-1765120156
                      TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
         Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                      ++  +++t++q++++e +++ +++p+ ++r+eL+ +lgL   q+k+WFqN+R+++k
  Lj3g3v1541360.1  65 KKGYHRHTTHQIHQMELFYKHCPHPDDKQRKELSGELGLAPLQIKFWFQNKRTQMK 120
                      5778899**********************************************998 PP
2START187.85.7e-592534731206
                      HHHHHHHHHHHHHHHHC-TT-EEEE....EXCCTTEEEEEEESSS......SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EEEE CS
            START   1 elaeeaaqelvkkalaeepgWvkss....esengdevlqkfeeskv.....dsgealrasgvvdmvlallveellddkeqWdetla....kaet 81 
                      e+a +a++elv++a a++p+Wv+s     e++n++e+l+ f+++ +      ++e +r+s++  m++a+lv  l++++ qW   +     ka+t
  Lj3g3v1541360.1 253 EVAVAAMEELVRLARAGHPLWVLSNnhnaEILNEEEYLRVFPRGTGskpfgVRSESSRDSAIIMMNPANLVDMLMNVN-QWASFFChivsKAST 345
                      68899**************************************998*****9**************************.99988777777**** PP

                      EEEECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEEEEEEE CS
            START  82 levissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksnghskvtwve 168
                      lev+s+g      galq+++ae+q+++plv+ R+ + vRy++q+++g w++vdvS+d+ ++ +    + R +++pSg++i+p++ g+sk+twve
  Lj3g3v1541360.1 346 LEVLSTGvagnynGALQVIQAEFQLPTPLVStRENYLVRYCKQHPDGIWAVVDVSLDNLRPST----ISRNRRRPSGCVIQPLPSGYSKITWVE 435
                      *************************************************************88....69999********************** PP

                      -EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
            START 169 hvdlkgrlphwllrslvksglaegaktwvatlqrqcek 206
                      hv++++r + +++r+lv+sgl++gak+wvatl+rqce+
  Lj3g3v1541360.1 436 HVEVDDRAVNSIYRPLVGSGLPFGAKRWVATLDRQCER 473
                      ************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466891.42E-1650122IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.601.8E-1855124IPR009057Homeodomain-like
PROSITE profilePS5007114.73862122IPR001356Homeobox domain
SMARTSM003894.2E-1664126IPR001356Homeobox domain
CDDcd000861.23E-1465123No hitNo description
PfamPF000461.1E-1466120IPR001356Homeobox domain
PROSITE patternPS00027097120IPR017970Homeobox, conserved site
PROSITE profilePS5084845.064244476IPR002913START domain
SuperFamilySSF559611.69E-37245475No hitNo description
CDDcd088751.60E-113248472No hitNo description
SMARTSM002341.5E-64253473IPR002913START domain
PfamPF018523.3E-49253473IPR002913START domain
Gene3DG3DSA:3.30.530.203.0E-7313473IPR023393START-like domain
SuperFamilySSF559611.14E-20502719No 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: 728 aa     Download sequence    Send to blast
MFNSNVFDPH HPMLDMSPPN NSSGSGQVRR REEDDIDAKS GGTGMETIDV PFTDEQQDSN  60
QRPRKKGYHR HTTHQIHQME LFYKHCPHPD DKQRKELSGE LGLAPLQIKF WFQNKRTQMK  120
AQSERQENAH LKAENEKLLV ENMRYKEAFS KATCTTCGGP ASPGEMSYDE QFMKLENARL  180
REEIERISGI VAKYAGKSTT SYSSLLSQNY NQMPSSSRAF DLGVGNYGGD GNDLLRSSLP  240
PILADADKPI IVEVAVAAME ELVRLARAGH PLWVLSNNHN AEILNEEEYL RVFPRGTGSK  300
PFGVRSESSR DSAIIMMNPA NLVDMLMNVN QWASFFCHIV SKASTLEVLS TGVAGNYNGA  360
LQVIQAEFQL PTPLVSTREN YLVRYCKQHP DGIWAVVDVS LDNLRPSTIS RNRRRPSGCV  420
IQPLPSGYSK ITWVEHVEVD DRAVNSIYRP LVGSGLPFGA KRWVATLDRQ CERLASSMAS  480
IIPAGDICPV TDADGRKSIL NLAEKMVMGY CTGVGASSTW STLVGSNDIR VMTRNGVDEP  540
GRDPSLVLSA ATSLWLPVPP KRVFDFLRDA NSRSQWDILS NGGLTEELVH IANGRNPGNY  600
VSILRNNNAE TTNMVVLQES CTDSTGSYVI YAPVDVSAMN LVLTGGDPSY VALLPSGFAI  660
LPDGPPRVNN EGLILEVGGG GTLLTVAFQI LANSAPDAKL TITSVPTVRD LIKCTIERIS  720
SAVMDPIP
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: First expressed in the apical cell after the first asymmetric division of the zygote. Expressed in all proembryo cells until the eight-cell stage, and then restricted to the protoderm in the 16-cell proembryo. Not detected in the torpedo stage, but reappeared later in the L1 layer of the shoot apical meristem in the mature embryo. After germination, the L1 layer-specific expression pattern is maintained in the vegetative shoot apical meristem, inflorescence, floral meristems, and the young floral organ primordia. Finally, expressed in the protoderm of the ovule primordia and integuments and gradually restricted to the endothelium surrounding the embryo sac. {ECO:0000269|PubMed:10571886, ECO:0000269|PubMed:8989876}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in cell specification and pattern formation during embryogenesis. Binds to the L1 box DNA sequence 5'-TAAATG[CT]A-3'. Plays a role in maintaining the identity of L1 cells, possibly by interacting with their L1 box or other target-gene promoters. Functionally redundant to PDF2. {ECO:0000269|PubMed:11439135, ECO:0000269|PubMed:12505995}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLj3g3v1541360.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0066630.0AP006663.1 Lotus japonicus genomic DNA, chromosome 1, clone: LjT48G05, TM0358, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_027361562.10.0homeobox-leucine zipper protein MERISTEM L1-like
SwissprotQ8RWU40.0ATML1_ARATH; Homeobox-leucine zipper protein MERISTEM L1
TrEMBLA0A438JG680.0A0A438JG68_VITVI; Homeobox-leucine zipper protein PROTODERMAL FACTOR 2
TrEMBLE0CVM00.0E0CVM0_VITVI; Uncharacterized protein
STRINGVIT_10s0116g00680.t010.0(Vitis vinifera)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G21750.20.0HD-ZIP 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. Takada S,Takada N,Yoshida A
    Induction of epidermal cell fate in Arabidopsis shoots.
    Plant Signal Behav, 2013. 8(11): p. e26236
    [PMID:23989220]
  3. Liang Z,Brown RC,Fletcher JC,Opsahl-Sorteberg HG
    Calpain-Mediated Positional Information Directs Cell Wall Orientation to Sustain Plant Stem Cell Activity, Growth and Development.
    Plant Cell Physiol., 2015. 56(9): p. 1855-66
    [PMID:26220906]
  4. Katagiri Y, et al.
    The coordination of ploidy and cell size differs between cell layers in leaves.
    Development, 2016. 143(7): p. 1120-5
    [PMID:26903507]
  5. Seeliger I, et al.
    The AP2-type transcription factors DORNRÖSCHEN and DORNRÖSCHEN-LIKE promote G1/S transition.
    Mol. Genet. Genomics, 2016. 291(5): p. 1835-49
    [PMID:27277595]
  6. Schwarz EM,Roeder AH
    Transcriptomic Effects of the Cell Cycle Regulator LGO in Arabidopsis Sepals.
    Front Plant Sci, 2016. 7: p. 1744
    [PMID:27920789]
  7. Meyer HM, et al.
    Fluctuations of the transcription factor ATML1 generate the pattern of giant cells in the Arabidopsis sepal.
    Elife, 2018.
    [PMID:28145865]