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 Niben101Scf00176g11005.1
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: 726aa    MW: 79852.5 Da    PI: 6.247
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Niben101Scf00176g11005.1genomeBTI-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox59.74.9e-1962117156
                               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
  Niben101Scf00176g11005.1  62 KKRYHRHTQHQIQEMESFFKECPHPDDKQRKELGKRLALEPLQVKFWFQNKRTQMK 117
                               688999***********************************************998 PP
2START211.23.9e-662504651206
                               HHHHHHHHHHHHHHHHC-TT-EEEE.....EXCCTTEEEEEEESSS......SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT CS
                     START   1 elaeeaaqelvkkalaeepgWvkss.....esengdevlqkfeeskv.....dsgealrasgvvdmvlallveellddkeqWdet 75 
                               ela +a++el+++a+++e +W+ ss     e++ ++e++++f+++ +      ++ea+r+s+vv+m++ +lve+l+d++ qW++ 
  Niben101Scf00176g11005.1 250 ELAVAAMEELIRMAQSGEHLWMPSSninstEILSEEEYVRNFPRGIGpkplaLKSEASRESAVVIMNHINLVEILMDVN-QWTNV 333
                               57899***************************************999********************************.***** PP

                               -S....EEEEEEEECTTEEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEE CS
                     START  76 la....kaetlevissggalqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgilie 155
                               +a    ka+tlev+s+g a  +  a  +++splvp R+ +fvRy++q+ +g+w++vdvS+d+ ++ +    + R++++pSg+li+
  Niben101Scf00176g11005.1 334 FAglvsKAMTLEVLSTGVAGNYNGALQVVPSPLVPtRENYFVRYCKQHADGTWAVVDVSLDNLRPTS----LSRCRRRPSGCLIQ 414
                               ****************************************************************976....7************* PP

                               EECTCEEEEEEEE-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXXX CS
                     START 156 pksnghskvtwvehvdlkgrlphwllrslvksglaegaktwvatlqrqcek 206
                               +++ng+skvtwvehv+++++ +h+++++lv+sgla+ga++wvatl+rqce+
  Niben101Scf00176g11005.1 415 ELPNGYSKVTWVEHVEVDEKAVHSIYKPLVNSGLAFGARRWVATLDRQCER 465
                               *************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.607.1E-2244117IPR009057Homeodomain-like
SuperFamilySSF466895.85E-1848119IPR009057Homeodomain-like
PROSITE profilePS5007116.1859119IPR001356Homeobox domain
SMARTSM003893.3E-1660123IPR001356Homeobox domain
CDDcd000868.66E-1762120No hitNo description
PfamPF000461.1E-1662117IPR001356Homeobox domain
PROSITE profilePS5084844.892241468IPR002913START domain
SuperFamilySSF559612.05E-33242467No hitNo description
CDDcd088753.57E-121245464No hitNo description
SMARTSM002347.3E-62250465IPR002913START domain
PfamPF018522.9E-55251465IPR002913START domain
Gene3DG3DSA:3.30.530.206.2E-5363464IPR023393START-like domain
SuperFamilySSF559613.8E-26485718No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
GO:0008289Molecular Functionlipid binding
Sequence ? help Back to Top
Protein Sequence    Length: 726 aa     Download sequence    Send to blast
MFKPNMFDSH HHLLDMSAHN KTPENEMDFI RDEEFESKSG TDIMEAPNSG ADQDPNQRPN  60
KKKRYHRHTQ HQIQEMESFF KECPHPDDKQ RKELGKRLAL EPLQVKFWFQ NKRTQMKAQH  120
ERSENTQLRN ENEKLRAENI RYKEALSNAA CPNCGGPAAI GEMSFDEQHL RIENARLREE  180
IDRISGIAAK YVGGKPLLNF PQIPPPEASC SLDIGFRPQS SLLGEMYSAG DLLRTAISGL  240
TDAEKPIVIE LAVAAMEELI RMAQSGEHLW MPSSNINSTE ILSEEEYVRN FPRGIGPKPL  300
ALKSEASRES AVVIMNHINL VEILMDVNQW TNVFAGLVSK AMTLEVLSTG VAGNYNGALQ  360
VVPSPLVPTR ENYFVRYCKQ HADGTWAVVD VSLDNLRPTS LSRCRRRPSG CLIQELPNGY  420
SKVTWVEHVE VDEKAVHSIY KPLVNSGLAF GARRWVATLD RQCERLASAM ANNIPTGDVG  480
IITSPAGRKS MLKLAERMVM SFCAGVGAST THTWTTLSGS GADDVRVMTR KSIDDPGRPP  540
GIVLSAATSF WLPVSPKRVF DFLRDENSRS EWDILSNGGL VQEMAHIANG RDPGNCVSLL  600
RVNSGNSNQS NMLILQESST DSTGSYVIYA PVDIVAMNVV LSGGDPDYVA LLPSGFAILP  660
DGSSNHSGDN PEAIGNSGGS LLTVAFQILV DSVPTAKLSL GSVATVNSLI KCTVERIKTA  720
VTCENA
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}.
UniProtProbable transcription factor that 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 ATML1. {ECO:0000269|PubMed:12505995}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_016440385.10.0PREDICTED: homeobox-leucine zipper protein MERISTEM L1-like
SwissprotQ8RWU40.0ATML1_ARATH; Homeobox-leucine zipper protein MERISTEM L1
SwissprotQ93V990.0PDF2_ARATH; Homeobox-leucine zipper protein PROTODERMAL FACTOR 2
TrEMBLA0A1S3XK790.0A0A1S3XK79_TOBAC; homeobox-leucine zipper protein MERISTEM L1-like
STRINGXP_009790281.10.0(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
AT4G04890.10.0protodermal factor 2
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. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  4. 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]
  5. 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]
  6. 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]
  7. Schwarz EM,Roeder AH
    Transcriptomic Effects of the Cell Cycle Regulator LGO in Arabidopsis Sepals.
    Front Plant Sci, 2016. 7: p. 1744
    [PMID:27920789]
  8. Meyer HM, et al.
    Fluctuations of the transcription factor ATML1 generate the pattern of giant cells in the Arabidopsis sepal.
    Elife, 2018.
    [PMID:28145865]