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 Niben101Scf09157g00010.1
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: 412aa    MW: 47396.4 Da    PI: 4.8745
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Niben101Scf09157g00010.1genomeBTI-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox56.64.3e-18140192254
                               T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHH CS
                  Homeobox   2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRak 54 
                               rk+ ++tk+q  +Lee F+++++ + ++++ LAk+lgL  rqV vWFqNrRa+
  Niben101Scf09157g00010.1 140 RKKLRLTKDQSAVLEESFKEHNTFNPKQKQALAKRLGLRPRQVEVWFQNRRAR 192
                               678899**********************************************8 PP
2Homeobox56.35.5e-18258310254
                               T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHH CS
                  Homeobox   2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRak 54 
                               rk+ ++tk+q  +Lee F+++++ + ++++ LAk+lgL  rqV vWFqNrRa+
  Niben101Scf09157g00010.1 258 RKKLRLTKDQSAVLEESFKEHNTFNPKQKQALAKRLGLRPRQVEVWFQNRRAR 310
                               678899**********************************************9 PP
3HD-ZIP_I/II80.52.6e-26140197158
               HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkq 58 
                               +kk+rl+k+q+++LEesF+e+++ +p++K++la++Lgl+prqv+vWFqnrRAR+   +
  Niben101Scf09157g00010.1 140 RKKLRLTKDQSAVLEESFKEHNTFNPKQKQALAKRLGLRPRQVEVWFQNRRARVSXPK 197
                               69***************************************************87644 PP
4HD-ZIP_I/II123.41.1e-39258347191
               HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeve 85 
                               +kk+rl+k+q+++LEesF+e+++ +p++K++la++Lgl+prqv+vWFqnrRARt +kq+E+d+e+Lkr++++l+een+rL+kev+
  Niben101Scf09157g00010.1 258 RKKLRLTKDQSAVLEESFKEHNTFNPKQKQALAKRLGLRPRQVEVWFQNRRARTNLKQTEVDCEFLKRCCENLTEENRRLQKEVQ 342
                               69*********************************************************************************** PP

               HD-ZIP_I/II  86 eLreel 91 
                               eLr +l
  Niben101Scf09157g00010.1 343 ELR-AL 347
                               **9.55 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046184.7E-261117IPR006712HD-ZIP protein, N-terminal
SuperFamilySSF466892.22E-16133192IPR009057Homeodomain-like
PROSITE profilePS5007116.552136196IPR001356Homeobox domain
SMARTSM003891.7E-15138200IPR001356Homeobox domain
CDDcd000862.63E-13140192No hitNo description
Gene3DG3DSA:1.10.10.603.4E-17140192IPR009057Homeodomain-like
PfamPF000461.5E-15140192IPR001356Homeobox domain
PRINTSPR000312.5E-5167176IPR000047Helix-turn-helix motif
PRINTSPR000312.5E-5176192IPR000047Helix-turn-helix motif
PfamPF046186.0E-10203235IPR006712HD-ZIP protein, N-terminal
Gene3DG3DSA:1.10.10.603.7E-17250308IPR009057Homeodomain-like
SuperFamilySSF466891.17E-16251312IPR009057Homeodomain-like
PROSITE profilePS5007116.617254314IPR001356Homeobox domain
SMARTSM003897.6E-15256318IPR001356Homeobox domain
CDDcd000862.63E-13258310No hitNo description
PfamPF000461.9E-15258310IPR001356Homeobox domain
PfamPF021833.5E-11314348IPR003106Leucine zipper, homeobox-associated
SMARTSM003404.2E-27314357IPR003106Leucine zipper, homeobox-associated
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 412 aa     Download sequence    Send to blast
MLENQDWGLS LSLNFPENKT TNSLQLNLFT SLASSTSHSP SPFSLFQKTC WTDSFPSSDR  60
NLETCRTFLK GIDVNRIPKI TDKEEEEEEE EEEEEGGVSS PNSTISSLSG NKRNEREINC  120
EEELDCSRGI SDEEDGETCR KKLRLTKDQS AVLEESFKEH NTFNPKQKQA LAKRLGLRPR  180
QVEVWFQNRR ARVSXPKITD KEEEEEEEEE EEEGGVSSPN STISSLSGNK RNEREINCEE  240
ELDCSRGISD EEDGETCRKK LRLTKDQSAV LEESFKEHNT FNPKQKQALA KRLGLRPRQV  300
EVWFQNRRAR TNLKQTEVDC EFLKRCCENL TEENRRLQKE VQELRALKLS PQFYMQMTPP  360
TTLTTCPSCE HPHQVPRMST LEPTKWAWPN NNGSCRLIFG PPLPSRISPS AP
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the negative regulation of cell elongation and specific cell proliferation processes such as lateral root formation and secondary growth of the vascular system. Acts as mediator of the red/far-red light effects on leaf cell expansion in the shading response. Binds to the DNA sequence 5'-CAAT[GC]ATTG-3'. Negatively regulates its own expression. {ECO:0000269|PubMed:10477292, ECO:0000269|PubMed:11260495, ECO:0000269|PubMed:8449400}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Rapidly and strongly induced by lowering the ratio of red to far-red light. {ECO:0000269|PubMed:8106086}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019230533.11e-107PREDICTED: homeobox-leucine zipper protein HAT4-like
SwissprotQ054664e-74HAT4_ARATH; Homeobox-leucine zipper protein HAT4
TrEMBLA0A314KKW11e-106A0A314KKW1_NICAT; Homeobox-leucine zipper protein hat4
STRINGXP_009590186.11e-103(Nicotiana tomentosiformis)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G16780.13e-67homeobox protein 2
Publications ? help Back to Top
  1. Carabelli M,Turchi L,Ruzza V,Morelli G,Ruberti I
    Homeodomain-Leucine Zipper II family of transcription factors to the limelight: central regulators of plant development.
    Plant Signal Behav, 2014.
    [PMID:23838958]
  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. Francisco M, et al.
    Genome Wide Association Mapping in Arabidopsis thaliana Identifies Novel Genes Involved in Linking Allyl Glucosinolate to Altered Biomass and Defense.
    Front Plant Sci, 2016. 7: p. 1010
    [PMID:27462337]
  4. Müller-Moulé P, et al.
    YUCCA auxin biosynthetic genes are required for Arabidopsis shade avoidance.
    PeerJ, 2016. 4: p. e2574
    [PMID:27761349]
  5. Ivarson E, et al.
    Effects of Overexpression of WRI1 and Hemoglobin Genes on the Seed Oil Content of Lepidium campestre.
    Front Plant Sci, 2016. 7: p. 2032
    [PMID:28119714]
  6. Kasulin L, et al.
    A single haplotype hyposensitive to light and requiring strong vernalization dominates Arabidopsis thaliana populations in Patagonia, Argentina.
    Mol. Ecol., 2017. 26(13): p. 3389-3404
    [PMID:28316114]
  7. Singh M,Gupta A,Singh D,Khurana JP,Laxmi A
    Arabidopsis RSS1 Mediates Cross-Talk Between Glucose and Light Signaling During Hypocotyl Elongation Growth.
    Sci Rep, 2017. 7(1): p. 16101
    [PMID:29170398]