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 Itr_sc000022.1_g00011.1
Organism
Ipomoea trifida
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea
Family HD-ZIP
Protein Properties Length: 304aa    MW: 33253.4 Da    PI: 7.8559
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Itr_sc000022.1_g00011.1genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox59.94.1e-19136190256
                              T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
                 Homeobox   2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                              rk+ +++keq  +Le+ F+ +++++ +++  LAk+l+L+ rqV vWFqNrRa+ k
  Itr_sc000022.1_g00011.1 136 RKKLRLSKEQAAVLEDTFRGHNTLNPKQKVALAKQLNLKPRQVEVWFQNRRARTK 190
                              788899***********************************************98 PP
2HD-ZIP_I/II1253.4e-40136225191
              HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekevee 86 
                              +kk+rlskeq+++LE++F+ +++L+p++Kv+la++L+l+prqv+vWFqnrRARtk+kq+E d+e+L+r++++l++en+rL+kev++
  Itr_sc000022.1_g00011.1 136 RKKLRLSKEQAAVLEDTFRGHNTLNPKQKVALAKQLNLKPRQVEVWFQNRRARTKLKQTEIDCEYLRRCCERLADENRRLHKEVND 221
                              69************************************************************************************ PP

              HD-ZIP_I/II  87 Lreel 91 
                              Lr +l
  Itr_sc000022.1_g00011.1 222 LR-AL 225
                              *9.44 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046182.2E-106103IPR006712HD-ZIP protein, N-terminal
Gene3DG3DSA:1.10.10.606.7E-18120191IPR009057Homeodomain-like
PROSITE profilePS5007116.844132192IPR001356Homeobox domain
SMARTSM003892.5E-15134196IPR001356Homeobox domain
CDDcd000862.10E-14136193No hitNo description
PfamPF000461.9E-16136190IPR001356Homeobox domain
SuperFamilySSF466894.71E-18136201IPR009057Homeodomain-like
PROSITE patternPS000270167190IPR017970Homeobox, conserved site
PfamPF021831.1E-9192226IPR003106Leucine zipper, homeobox-associated
SMARTSM003405.0E-24192235IPR003106Leucine 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: 304 aa     Download sequence    Send to blast
MGESNNDDFG LSLSLGLPPA TVNGKNGNGF EPPTSRSFPL NLLHPRLPFM QGNTPRNLQS  60
SPENGGGIDI NQPVTAAEYD DNAMASSPQS TASTVTGKRS EREYETETAA AAAEAEMAAT  120
SSMEEDDAGD DAAAARKKLR LSKEQAAVLE DTFRGHNTLN PKQKVALAKQ LNLKPRQVEV  180
WFQNRRARTK LKQTEIDCEY LRRCCERLAD ENRRLHKEVN DLRALKLSPQ LYMNMSPPTT  240
LIMCPQCQRA PLSSPPPTSS ASSCAPTLPA TAAAVHRHQP PPPPPHGLIQ WTAILQPQPH  300
RPQL
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1184192RRARTKLKQ
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_019191481.11e-156PREDICTED: homeobox-leucine zipper protein HAT4-like
SwissprotQ054663e-76HAT4_ARATH; Homeobox-leucine zipper protein HAT4
TrEMBLA0A484LHJ47e-96A0A484LHJ4_9ASTE; Uncharacterized protein
STRINGSolyc01g090460.2.12e-86(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA11182485
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G16780.12e-64homeobox 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]