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 Lus10006765
Organism
Linum usitatissimum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Linaceae; Linum
Family HD-ZIP
Protein Properties Length: 733aa    MW: 80173.6 Da    PI: 5.5493
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lus10006765genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox61.99.3e-2061116156
                  TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
     Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                  +++ +++t+ q++e+e++F+++++p+ ++r+eL+++lgL+  qVk+WFqN+R+++k
  Lus10006765  61 KKRYHRHTQRQIQEMEAFFKECPHPDDKQRKELSRELGLEPLQVKFWFQNKRTQMK 116
                  688999***********************************************998 PP
2START209.71.1e-652494691206
                  HHHHHHHHHHHHHHHHC-TT-EEEE....EXCCTTEEEEEEESSS......SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EEEEEEEE CS
        START   1 elaeeaaqelvkkalaeepgWvkss....esengdevlqkfeeskv.....dsgealrasgvvdmvlallveellddkeqWdetla....kaetlevi 85 
                  ela +a++elv++a+a+ep+W        e +n++e+l++f+++ +      ++ea+r+s+vv+m++++lve+l+d++ qW + +     +a+tl+v+
  Lus10006765 249 ELAVAAMEELVRMAQAGEPLWINGNatggEVLNEEEYLRTFPRGIGpkplgLRSEASRESAVVIMNHVNLVEILMDVN-QWATVFCgivsRAMTLDVL 345
                  57899******************999*****************999********************************.******99999******** PP

                  CTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SSX CS
        START  86 ssg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksnghskvtwvehvdlkgrl 176
                  s+g      galq+m+ae+q++splvp R+ +fvRy++q+++g w++vdvS+ds ++ p      + +++pSg+li++++ng+skv wvehv++++++
  Lus10006765 346 STGvagnynGALQVMTAEFQVPSPLVPtRENYFVRYCKQQSEGIWAVVDVSLDSLRPTPL----SKNRRRPSGCLIQELANGYSKVMWVEHVEVDDAS 439
                  **********************************************************95....333369**************************** PP

                  XHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
        START 177 phwllrslvksglaegaktwvatlqrqcek 206
                  +h+++r+lv+sgla+gak+wv tl+rqce+
  Lus10006765 440 VHNIYRPLVHSGLAFGAKRWVNTLERQCER 469
                  ****************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466892.72E-1942118IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.606.7E-2345116IPR009057Homeodomain-like
PROSITE profilePS5007116.79558118IPR001356Homeobox domain
SMARTSM003891.9E-1859122IPR001356Homeobox domain
CDDcd000869.77E-1961119No hitNo description
PfamPF000462.3E-1761116IPR001356Homeobox domain
PROSITE patternPS00027093116IPR017970Homeobox, conserved site
SuperFamilySSF559617.33E-34240471No hitNo description
PROSITE profilePS5084842.687240472IPR002913START domain
CDDcd088757.68E-127244468No hitNo description
SMARTSM002348.0E-69249469IPR002913START domain
PfamPF018527.1E-56250469IPR002913START domain
SuperFamilySSF559612.4E-24489728No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009845Biological Processseed germination
GO:0009913Biological Processepidermal cell differentiation
GO:0048825Biological Processcotyledon development
GO:0090627Biological Processplant epidermal cell differentiation
GO:0005634Cellular Componentnucleus
GO:0008289Molecular Functionlipid binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 733 aa     Download sequence    Send to blast
MFDSPHIFEM TSKAFEAEIG KSSRDCLLDD YETKSGTDTM GGGADPSGDD QDATGQPPNK  60
KKRYHRHTQR QIQEMEAFFK ECPHPDDKQR KELSRELGLE PLQVKFWFQN KRTQMKAQHE  120
RHDNSILKSE NEKLRDENNR YKEALSNASC PNCGGPTTIG EMSFDEQHLR IENARLRDEI  180
DRISGIAAKY VGKPITSSFS QPPPSRSTLE LGSSNFSRSA SFVGEMFGAT DLLRSISGPT  240
EADKPMIVEL AVAAMEELVR MAQAGEPLWI NGNATGGEVL NEEEYLRTFP RGIGPKPLGL  300
RSEASRESAV VIMNHVNLVE ILMDVNQWAT VFCGIVSRAM TLDVLSTGVA GNYNGALQVM  360
TAEFQVPSPL VPTRENYFVR YCKQQSEGIW AVVDVSLDSL RPTPLSKNRR RPSGCLIQEL  420
ANGYSKVMWV EHVEVDDASV HNIYRPLVHS GLAFGAKRWV NTLERQCERL ASSLAINIPA  480
GDFCVMTGPE GRKSMLKLAE RMAMSFCTGV GASTAHAWTT LSPSGTDDVR VMTRKSMDDP  540
GRPPGIVLSA ATSFWISVPP KRVFDFLRDE NHRSEWDILS NGGQVEEIAH IANGRDHGNS  600
VSLLRVNSAN SSQSNMLILQ ESSVDSTGSY VIYAPVDIAA MNIILTGGDP DYVALLPSGF  660
AILPDGPPPT TTTTFDSGEM VHDVVGSGGS LLTVAFQILV DSIPTAKLSL GSVATVNNLI  720
KCTVERIKAA VA*
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
PlantRegMapLus10006765
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_007026002.10.0PREDICTED: homeobox-leucine zipper protein MERISTEM L1
RefseqXP_007026003.10.0PREDICTED: homeobox-leucine zipper protein MERISTEM L1
RefseqXP_007026004.10.0PREDICTED: homeobox-leucine zipper protein MERISTEM L1
SwissprotQ8RWU40.0ATML1_ARATH; Homeobox-leucine zipper protein MERISTEM L1
TrEMBLA0A061GGE70.0A0A061GGE7_THECC; Protodermal factor 2 isoform 1
STRINGLus100067650.0(Linum usitatissimum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF15083499
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]