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 Niben101Scf00703g00003.1
Organism
Nicotiana benthamiana
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana
Family HD-ZIP
Protein Properties Length: 717aa    MW: 78626.2 Da    PI: 6.0523
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Niben101Scf00703g00003.1genomeBTI-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox57.22.9e-1859114156
                               TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
                  Homeobox   1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                               +++ +++t+ q++e+e++F+++++p+ ++r+eL k+l L+  qVk+WFqN+R+++k
  Niben101Scf00703g00003.1  59 KKRYHRHTQIQIQEMEAFFKECPHPDDKQRKELGKRLALEPLQVKFWFQNKRTQMK 114
                               688899***********************************************998 PP
2START219.51.1e-682484681206
                               HHHHHHHHHHHHHHHHC-TT-EEEE....EXCCTTEEEEEEESSS......SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT- CS
                     START   1 elaeeaaqelvkkalaeepgWvkss....esengdevlqkfeeskv.....dsgealrasgvvdmvlallveellddkeqWdetl 76 
                               ela +a++el+++a+ +ep+W +s+    e + ++e++++f+++ +      ++ea r+s+vv+m++ +lve+l+d++ qW+  +
  Niben101Scf00703g00003.1 248 ELAVAAMEELIRMAQTGEPLWISSPdnstETLCEEEYVRTFSRGIGpkplgLKSEATRESAVVIMNHINLVEILMDVN-QWTSVF 331
                               57899********************998888899*******99999********************************.****** PP

                               S....EEEEEEEECTT......EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSE CS
                     START  77 a....kaetlevissg......galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpS 150
                               a    +a+tlev+s+g      galq+m+ae+q++splvp R+ +fvRy++ + +g+wv+vdvS+d+ ++ ++     R++++pS
  Niben101Scf00703g00003.1 332 AglvsRAMTLEVLSTGvagnynGALQVMTAEFQVPSPLVPtRENYFVRYCKHHADGTWVVVDVSLDNLRPTST----SRCRRRPS 412
                               **********************************************************************875....9******* PP

                               EEEEEEECTCEEEEEEEE-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
                     START 151 giliepksnghskvtwvehvdlkgrlphwllrslvksglaegaktwvatlqrqcek 206
                               g+li++++ng+skvtw+eh+++++r +h+++r+lv+sgla+gak+wvatl+rqce+
  Niben101Scf00703g00003.1 413 GCLIQELPNGYSKVTWIEHIEVDDRAVHNIYRPLVNSGLAFGAKRWVATLDRQCER 468
                               ******************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.601.7E-2140114IPR009057Homeodomain-like
SuperFamilySSF466898.36E-1841116IPR009057Homeodomain-like
PROSITE profilePS5007115.83956116IPR001356Homeobox domain
SMARTSM003896.2E-1657120IPR001356Homeobox domain
PfamPF000466.7E-1659114IPR001356Homeobox domain
CDDcd000862.36E-1659117No hitNo description
PROSITE profilePS5084847.171239471IPR002913START domain
SuperFamilySSF559611.33E-36239470No hitNo description
CDDcd088751.51E-129243467No hitNo description
SMARTSM002349.2E-69248468IPR002913START domain
PfamPF018527.9E-58249468IPR002913START domain
Gene3DG3DSA:3.30.530.203.2E-7319468IPR023393START-like domain
SuperFamilySSF559611.61E-16488709No 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: 717 aa     Download sequence    Send to blast
MFQPNMFESH HHLLDMSHKS SENELDLIPD DEFDTKSGTD IMENPSGDDQ DPNQRPNKKK  60
RYHRHTQIQI QEMEAFFKEC PHPDDKQRKE LGKRLALEPL QVKFWFQNKR TQMKAQHERH  120
ENSQLRNENE KLRAENIRYK EALGNATCPN CGGPAAIGEM SFDEQHLRIE NARLREEIDR  180
ISGIAAKYVG KPMLNYPNLP STGLIRSLDL GVGSFGPQTG LVGEMFSASD LLRSVSGPTD  240
SDKPIIIELA VAAMEELIRM AQTGEPLWIS SPDNSTETLC EEEYVRTFSR GIGPKPLGLK  300
SEATRESAVV IMNHINLVEI LMDVNQWTSV FAGLVSRAMT LEVLSTGVAG NYNGALQVMT  360
AEFQVPSPLV PTRENYFVRY CKHHADGTWV VVDVSLDNLR PTSTSRCRRR PSGCLIQELP  420
NGYSKVTWIE HIEVDDRAVH NIYRPLVNSG LAFGAKRWVA TLDRQCERLA SAMANNIPTG  480
DIGVITSPEG RRSMLKLAER MVMSFCAGVG ASTAHTWTTL SGSGADDVRV MTRKSVDDPG  540
RPPGIVLSAA TSFWLPVPPK RWDILSNGGL VQEMAHIANG RDPGNCVSLL RVNSGNSSQS  600
NMLILQESST DSTGSYVIYA PVDIVAMNVV LSGGDPDYVA LLPSGFAILP DGSMSSHCGG  660
NNVAEVGNGG SLLTVAFQIL VDSVPTAKLS LGSVATVNSL IKCTVERIKT AVACDNA
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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019249652.10.0PREDICTED: homeobox-leucine zipper protein MERISTEM L1-like
SwissprotQ8RWU40.0ATML1_ARATH; Homeobox-leucine zipper protein MERISTEM L1
TrEMBLA0A1J6IZ030.0A0A1J6IZ03_NICAT; Homeobox-leucine zipper protein meristem l1
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]