PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Sopen03g005620.1
Organism
Solanum pennellii
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; Lycopersicon
Family HD-ZIP
Protein Properties Length: 732aa    MW: 80031.8 Da    PI: 5.532
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sopen03g005620.1genomespennView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox59.94e-1963118156
                       TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
          Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                       +++ +++t+ q++e+e++F+++++p+ ++r+eL k+lgL+  qVk+WFqN+R+++k
  Sopen03g005620.1  63 KKRYHRHTQLQIQEMESFFKECPHPDDKQRKELGKRLGLEPLQVKFWFQNKRTQMK 118
                       688999***********************************************998 PP
2START206.88.3e-652524771206
                       HHHHHHHHHHHHHHHHC-TT-EEEE........EXCCTTEEEEEEESSS......SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S... CS
             START   1 elaeeaaqelvkkalaeepgWvkss........esengdevlqkfeeskv.....dsgealrasgvvdmvlallveellddkeqWdetla... 77 
                       ela +a++elv++a+ +ep+W + +        e + ++e++++f+++ +      ++ea+r+s+vv+m++ +lve+l+d++ qW++ +a   
  Sopen03g005620.1 252 ELAVAAMEELVRMAQTGEPLWITGPgpgpdnsiETLCEEEYVRTFPRGIGpkplgLTTEASRESAVVIMNHINLVEILMDVN-QWTNVFAglv 343
                       57899************************99999999**********999********************************.********** PP

                       .EEEEEEEECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE..TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCE CS
             START  78 .kaetlevissg......galqlmvaelqalsplvp.RdfvfvRyirq.lgagdwvivdvSvdseqkppesssvvRaellpSgiliepksngh 161
                        +a tl+v+s+g      galq+m+ae+q++splvp R+ +fvRy++    +g+w++vdvS+d+ ++ +    v R++++pSg+li++++ng+
  Sopen03g005620.1 344 sRALTLDVLSTGvagnynGALQVMTAEFQVPSPLVPtRENYFVRYCKHhAADGTWAVVDVSLDNLRPTS----VSRCRRRPSGCLIQELPNGY 432
                       ************************************************9999**************975....8******************* PP

                       EEEEEEE-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
             START 162 skvtwvehvdlkgrlphwllrslvksglaegaktwvatlqrqcek 206
                       skvtw+ehv++++r +h+++++lv+sgla+gak+wva l+rqce+
  Sopen03g005620.1 433 SKVTWIEHVEVDDRGVHNIYKPLVNSGLAFGAKRWVAVLDRQCER 477
                       *******************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466891.96E-1848120IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.604.6E-2149118IPR009057Homeodomain-like
PROSITE profilePS5007116.27760120IPR001356Homeobox domain
SMARTSM003892.6E-1761124IPR001356Homeobox domain
PfamPF000469.6E-1763118IPR001356Homeobox domain
CDDcd000861.07E-1763121No hitNo description
PROSITE profilePS5084843.642243480IPR002913START domain
SuperFamilySSF559612.85E-35244479No hitNo description
CDDcd088753.76E-126247476No hitNo description
SMARTSM002342.8E-63252477IPR002913START domain
PfamPF018521.7E-54253477IPR002913START domain
Gene3DG3DSA:3.30.530.207.2E-5352476IPR023393START-like domain
SuperFamilySSF559611.4E-27497723No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
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: 732 aa     Download sequence    Send to blast
MFQPNMFESH HHLLDMSHKS PENDLDLLGD NDEFESKSMA DIMENNPCGD DQEVDPNQRP  60
NKKKRYHRHT QLQIQEMESF FKECPHPDDK QRKELGKRLG LEPLQVKFWF QNKRTQMKAQ  120
HERHENSELR AENEKLRADN IRYKEALGNA TCPNCGGPAS IGEMSFDEQH LRIENARLRE  180
EIDRISGIAA KYVGKPMLTY PNLPPTGPTR SLDIGVGSFG PQTGLVGEMY SAGDLLRSVS  240
GPIDADKPMI IELAVAAMEE LVRMAQTGEP LWITGPGPGP DNSIETLCEE EYVRTFPRGI  300
GPKPLGLTTE ASRESAVVIM NHINLVEILM DVNQWTNVFA GLVSRALTLD VLSTGVAGNY  360
NGALQVMTAE FQVPSPLVPT RENYFVRYCK HHAADGTWAV VDVSLDNLRP TSVSRCRRRP  420
SGCLIQELPN GYSKVTWIEH VEVDDRGVHN IYKPLVNSGL AFGAKRWVAV LDRQCERLAS  480
AMANNIPTGD IGVITSPEGR KSMLKLAERM VMSFCAGVGA STAHTWTTLS GSGADDVRVM  540
TRKSIDDPGR PPGIVLSAAT SFWLPVPPKR VFDFLRDENS RSEWDILSNG GLVQEMAHIA  600
NGRDPGNCVS LLRVNSGNSS QSNMLILQES STDSTGSYVI YAPVDIVAMN VVLSGGDPDY  660
VALLPSGFAI LPDGGGGINA GTGGSLLTVA FQILVDSVPT AKLSLGSVAT VNSLIKCTVE  720
RIKTAVACDS AL
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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9754420.0HG975442.1 Solanum pennellii chromosome ch03, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015070652.10.0homeobox-leucine zipper protein MERISTEM L1-like isoform X1
SwissprotQ8RWU40.0ATML1_ARATH; Homeobox-leucine zipper protein MERISTEM L1
TrEMBLA0A0V0IVG00.0A0A0V0IVG0_SOLCH; Putative homeobox-leucine zipper protein MERISTEM L1-like
STRINGXP_009799795.10.0(Nicotiana sylvestris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA9322491
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]