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 HL.SW.v1.0.G034152.1
Organism
Humulus lupulus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Cannabaceae; Humulus
Family HD-ZIP
Protein Properties Length: 324aa    MW: 35997.1 Da    PI: 8.1567
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
HL.SW.v1.0.G034152.1genomeHOPBASEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox60.23.3e-19156210256
                           T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
              Homeobox   2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                           rk+ +++k+q  +Lee F+++++++ +++  LAk+lgL  rqV vWFqNrRa+ k
  HL.SW.v1.0.G034152.1 156 RKKLRLSKDQSAILEESFKEHNTLNPKQKGALAKQLGLRPRQVEVWFQNRRARTK 210
                           788899***********************************************98 PP
2HD-ZIP_I/II129.51.3e-41156245191
           HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLre 89 
                           +kk+rlsk+q+++LEesF+e+++L+p++K +la++Lgl+prqv+vWFqnrRARtk+kq+E+d+e+Lkr++++l+een+rL+kev+eLr 
  HL.SW.v1.0.G034152.1 156 RKKLRLSKDQSAILEESFKEHNTLNPKQKGALAKQLGLRPRQVEVWFQNRRARTKLKQTEVDCEFLKRCCENLTEENRRLQKEVQELR- 243
                           69*************************************************************************************9. PP

           HD-ZIP_I/II  90 el 91 
                           +l
  HL.SW.v1.0.G034152.1 244 AL 245
                           55 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046185.0E-302129IPR006712HD-ZIP protein, N-terminal
SuperFamilySSF466892.8E-18143213IPR009057Homeodomain-like
PROSITE profilePS5007117.281152212IPR001356Homeobox domain
SMARTSM003891.4E-16154216IPR001356Homeobox domain
Gene3DG3DSA:1.10.10.602.9E-18156210IPR009057Homeodomain-like
PfamPF000461.5E-16156210IPR001356Homeobox domain
CDDcd000868.17E-15156213No hitNo description
PRINTSPR000312.4E-5183192IPR000047Helix-turn-helix motif
PROSITE patternPS000270187210IPR017970Homeobox, conserved site
PRINTSPR000312.4E-5192208IPR000047Helix-turn-helix motif
PfamPF021832.5E-11212246IPR003106Leucine zipper, homeobox-associated
SMARTSM003404.2E-27212255IPR003106Leucine zipper, homeobox-associated
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008283Biological Processcell proliferation
GO:0009641Biological Processshade avoidance
GO:0009733Biological Processresponse to auxin
GO:0009735Biological Processresponse to cytokinin
GO:0009826Biological Processunidimensional cell growth
GO:0010016Biological Processshoot system morphogenesis
GO:0010017Biological Processred or far-red light signaling pathway
GO:0010218Biological Processresponse to far red light
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0048364Biological Processroot development
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0042803Molecular Functionprotein homodimerization activity
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 324 aa     Download sequence    Send to blast
MMVEKEDLGL SLSLSFSNQN RHSVQRGSHN DNNKLNNLML TSFVPSLSTS SSSPSSGFNV  60
NLHQKPSWNE SFPSSADPNS ETYRVETRTL LRGIDVNRLP STVDCEDEAG VSSPNSTVSS  120
VSGKRSEREA VNGDDNEMER ASSRGISDEE DGETSRKKLR LSKDQSAILE ESFKEHNTLN  180
PKQKGALAKQ LGLRPRQVEV WFQNRRARTK LKQTEVDCEF LKRCCENLTE ENRRLQKEVQ  240
ELRALKLSPQ FYMQMTPPTT LTMCPSCERV AVPPSSSSAA SESRPHHQTM GPAHSRPIPI  300
GPWAAAAATP VQHRPFDAVH PRS*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1154160SRKKLRL
2204212RRARTKLKQ
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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKP2297231e-136KP229723.1 UNVERIFIED: Boehmeria nivea Homeobox-leucine zipper protein-like (HDZIP24) mRNA, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010104860.21e-164homeobox-leucine zipper protein HAT4
SwissprotQ054661e-111HAT4_ARATH; Homeobox-leucine zipper protein HAT4
TrEMBLA0A2P5FIV80.0A0A2P5FIV8_TREOI; Octamer-binding transcription factor
STRINGPOPTR_0001s15490.11e-164(Populus trichocarpa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF123934105
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G16780.11e-103homeobox 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]