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 Niben101Scf01759g04007.1
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: 879aa    MW: 96580.1 Da    PI: 6.1244
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Niben101Scf01759g04007.1genomeBTI-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox57.32.6e-182583357
                              --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS
                  Homeobox  3 kRttftkeqleeLeelFeknrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57
                              k  ++t+eq+e+Le++++++++ps  +r++L +++    +++ +q+kvWFqNrR +ek+
  Niben101Scf01759g04007.1 25 KYVRYTAEQVEALERVYAECPKPSSLRRQQLIRECpilsNIEPKQIKVWFQNRRCREKQ 83
                              56789****************************************************97 PP
2START78.91.2e-251642892126
                               HHHHHHHHHHHHHHHC-TT-EEEEEXCCTTEEEEEEESSS.SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-SEEEEEEEEC CS
                     START   2 laeeaaqelvkkalaeepgWvkssesengdevlqkfeeskvdsgealrasgvvdmvlallveellddkeqWdetlakaetlevis 86 
                               +aee+++e+++ka+ ++  Wv ++ +++g++++ +f+ s+++sg a+ra+g+v  +++   +e+l+d++ W ++++ +e+    s
  Niben101Scf01759g04007.1 164 IAEETLAEFLSKATGTAVDWVPMPGMKPGPDSVGIFAISHSCSGVAARACGLVSLEPT-KIAEILKDRPSWFRDCRNVEVFTMFS 247
                               7899******************************************************.7777777777**************** PP

                               TT.EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEE CS
                     START  87 sg.galqlmvaelqalsplvp.RdfvfvRyirqlgagdwviv 126
                                g g+++l +++ +a+++l+p Rdf+++Ry+ +l+ g++v+ 
  Niben101Scf01759g04007.1 248 AGnGTIELLYTQIYAPTTLAPaRDFWTLRYTTTLENGSFVVS 289
                               **************************************9985 PP
3START55.71.6e-18328411125205
                               EEEEEEE-TTS--....-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SSXXHHHHHHHHHHHHHHHHHHHHHHTXXXXX CS
                     START 125 ivdvSvdseqkppe...sssvvRaellpSgiliepksnghskvtwvehvdlkgrlphwllrslvksglaegaktwvatlqrqce 205
                               ++++S++ +   p+    s++ Ra++lpSg+li+p+++g+s +++v+h +l++++ +++lr+l++s+ + ++k++ a+l++ ++
  Niben101Scf01759g04007.1 328 VCERSLSGTGAGPNaasASQFLRAQMLPSGYLIRPCDGGGSIIHIVDHLNLEAWSAPEILRPLYESSKVVAQKMTIAALRYARQ 411
                               79999999999888888999***********************************************************99875 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5007115.4182084IPR001356Homeobox domain
SuperFamilySSF466891.92E-162186IPR009057Homeodomain-like
SMARTSM003891.0E-152288IPR001356Homeobox domain
CDDcd000865.13E-162585No hitNo description
PfamPF000466.9E-162683IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.603.1E-182783IPR009057Homeodomain-like
CDDcd146865.14E-677116No hitNo description
PROSITE profilePS5084823.256154421IPR002913START domain
SuperFamilySSF559613.16E-28159294No hitNo description
Gene3DG3DSA:3.30.530.206.0E-15163286IPR023393START-like domain
SMARTSM002341.9E-21163412IPR002913START domain
PfamPF018522.3E-22164289IPR002913START domain
Gene3DG3DSA:3.30.530.206.0E-15327406IPR023393START-like domain
PfamPF018529.4E-16328411IPR002913START domain
SuperFamilySSF559613.16E-28345414No hitNo description
SuperFamilySSF559618.24E-5442534No hitNo description
SuperFamilySSF559618.24E-5565631No hitNo description
PfamPF086701.6E-47735878IPR013978MEKHLA
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009855Biological Processdetermination of bilateral symmetry
GO:0009944Biological Processpolarity specification of adaxial/abaxial axis
GO:0009956Biological Processradial pattern formation
GO:0010014Biological Processmeristem initiation
GO:0010051Biological Processxylem and phloem pattern formation
GO:0010089Biological Processxylem development
GO:0030154Biological Processcell differentiation
GO:0005634Cellular Componentnucleus
GO:0008289Molecular Functionlipid binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 879 aa     Download sequence    Send to blast
MAMVAQQHRE SSSGSITKHL DSSGKYVRYT AEQVEALERV YAECPKPSSL RRQQLIRECP  60
ILSNIEPKQI KVWFQNRRCR EKQRKESSRL QTVNRKLSAM NKLLMEENDR LQKQVSQLVC  120
ENGFMRQQLH TASAATTDVS CESVVTTPQH SLRDANNPAG LLSIAEETLA EFLSKATGTA  180
VDWVPMPGMK PGPDSVGIFA ISHSCSGVAA RACGLVSLEP TKIAEILKDR PSWFRDCRNV  240
EVFTMFSAGN GTIELLYTQI YAPTTLAPAR DFWTLRYTTT LENGSFVVST SFALACLRIS  300
NLATFVLSYE YFADSFLYVP SIPPSLKVCE RSLSGTGAGP NAASASQFLR AQMLPSGYLI  360
RPCDGGGSII HIVDHLNLEA WSAPEILRPL YESSKVVAQK MTIAALRYAR QIAQETSGEV  420
VYGLGRQPAV LRTFSQRLSR GFNDAINGFS DDGWSLLSSD GGEDVIVAVN SRKNIATTSV  480
PLSPLGGILC AKASMLLQNV PPAVLVRFLR EHRSEWADFN VDAYVASSMK SCSYAYPGMR  540
PTRFTGSQII MPLGHTIEHE EMLEVIRLEG HSIGQEDAFM PRDIHLLQMC SGTDEDAVGA  600
CSELVFAAID EMFPDDAPLL PSGFRIIPLE SKSSDPQDTS NAHRTLDLAS SLEVGPATNL  660
ATGDVVSGYS ARSVLTIAFQ FPFEDNLQDN VATMARQYVR SVVSSVQRVA MAISPTGVNS  720
TFGSKLSPGS PEAVTLSHWI CQSYSYHMGT QLLQADSWGD ESVLKNLWQH QDAILCCSLK  780
SLPVFIFANK AGLDMLETTL VALQDITLDK IFDESGRKVL FAEFPKIMEQ GFAHLPGGIC  840
MSAMGRHISY EQAIAWKVFA SEETSIHCLA FSFINWSFV
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the regulation of interfascicular fiber (cortical cells) and secondary xylem differentiation in the inflorescence stems. Required for lateral shoot meristems (LSMs) and flower meristems (FMs) initiation. May be involved in the determination of vascular patterning and organ polarity (PubMed:10559440, PubMed:11169198, PubMed:11402186, PubMed:15111711, PubMed:15598805, PubMed:7555701). Directly regulates the expression of AGO10, ZPR1, ZPR2, ZPR3 and ZPR4 (PubMed:22781836). Required to regulate adaxial-abaxial polarity and leaf axial patterning (PubMed:20807212). {ECO:0000269|PubMed:10559440, ECO:0000269|PubMed:11169198, ECO:0000269|PubMed:11402186, ECO:0000269|PubMed:15111711, ECO:0000269|PubMed:15598805, ECO:0000269|PubMed:20807212, ECO:0000269|PubMed:22781836, ECO:0000269|PubMed:7555701}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin. Repressed by ZPR and miR165. Induced by DOF5.1 (PubMed:20807212). {ECO:0000269|PubMed:15111711, ECO:0000269|PubMed:17237362, ECO:0000269|PubMed:20807212}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_016504967.10.0PREDICTED: homeobox-leucine zipper protein REVOLUTA-like
RefseqXP_016504968.10.0PREDICTED: homeobox-leucine zipper protein REVOLUTA-like
SwissprotQ9SE430.0REV_ARATH; Homeobox-leucine zipper protein REVOLUTA
TrEMBLA0A1S4CV390.0A0A1S4CV39_TOBAC; homeobox-leucine zipper protein REVOLUTA-like
STRINGXP_009624234.10.0(Nicotiana tomentosiformis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA45724140
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60690.10.0HD-ZIP family protein
Publications ? help Back to Top
  1. Lian H,Li X,Liu Z,He Y
    HYL1 is required for establishment of stamen architecture with four microsporangia in Arabidopsis.
    J. Exp. Bot., 2013. 64(11): p. 3397-410
    [PMID:23918970]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Baima S, et al.
    Negative feedback regulation of auxin signaling by ATHB8/ACL5-BUD2 transcription module.
    Mol Plant, 2014. 7(6): p. 1006-1025
    [PMID:24777988]
  4. Jia X, et al.
    Functional plasticity of miR165/166 in plant development revealed by small tandem target mimic.
    Plant Sci., 2015. 233: p. 11-21
    [PMID:25711809]
  5. Roodbarkelari F,Du F,Truernit E,Laux T
    ZLL/AGO10 maintains shoot meristem stem cells during Arabidopsis embryogenesis by down-regulating ARF2-mediated auxin response.
    BMC Biol., 2015. 13: p. 74
    [PMID:26358077]
  6. Shi B, et al.
    Two-Step Regulation of a Meristematic Cell Population Acting in Shoot Branching in Arabidopsis.
    PLoS Genet., 2016. 12(7): p. e1006168
    [PMID:27398935]