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 Medtr4g100550.1
Common NameMTR_4g100550
Organism
Medicago truncatula
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Medicago
Family HD-ZIP
Protein Properties Length: 281aa    MW: 31849 Da    PI: 7.4457
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Medtr4g100550.1genomeMtView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox59.36.5e-19119173256
                      T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
         Homeobox   2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                      rk+ +++k+q  +Lee F+++++++ +++  LAk+lgL  rqV vWFqNrRa+ k
  Medtr4g100550.1 119 RKKLRLSKDQSAILEETFKEHNTLNPKQKLALAKQLGLRPRQVEVWFQNRRARTK 173
                      788899***********************************************98 PP
2HD-ZIP_I/II129.11.9e-41119208191
      HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreel 91 
                      +kk+rlsk+q+++LEe+F+e+++L+p++K +la++Lgl+prqv+vWFqnrRARtk+kq+E+d+e+Lkr++++l+een+rL+kev+eLr +l
  Medtr4g100550.1 119 RKKLRLSKDQSAILEETFKEHNTLNPKQKLALAKQLGLRPRQVEVWFQNRRARTKLKQTEVDCEVLKRCCENLTEENRRLQKEVQELR-AL 208
                      69*************************************************************************************9.55 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046186.4E-27398IPR006712HD-ZIP protein, N-terminal
SuperFamilySSF466892.92E-18113176IPR009057Homeodomain-like
PROSITE profilePS5007117.313115175IPR001356Homeobox domain
SMARTSM003894.2E-16117179IPR001356Homeobox domain
PfamPF000462.2E-16119173IPR001356Homeobox domain
CDDcd000861.36E-15119176No hitNo description
Gene3DG3DSA:1.10.10.604.7E-18124173IPR009057Homeodomain-like
PRINTSPR000311.8E-5146155IPR000047Helix-turn-helix motif
PROSITE patternPS000270150173IPR017970Homeobox, conserved site
PRINTSPR000311.8E-5155171IPR000047Helix-turn-helix motif
SMARTSM003404.6E-26175218IPR003106Leucine zipper, homeobox-associated
PfamPF021836.1E-12175209IPR003106Leucine 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: 281 aa     Download sequence    Send to blast
MMMVEKEDLG LSLSLNFFYN TPKPHPHPLN LISSSIQTFT SSDRNLETCR GESGKYLRGI  60
DVNRLPSTAI ECQEEEEAGV SSPNSTVSSV SGKRSLREED HDVENRENIS DEEDAETARK  120
KLRLSKDQSA ILEETFKEHN TLNPKQKLAL AKQLGLRPRQ VEVWFQNRRA RTKLKQTEVD  180
CEVLKRCCEN LTEENRRLQK EVQELRALKL SPQFYMQMTP PTTLTMCPSC ERVAVPSNAC  240
VDASNRHHSM AQAHPRAVPI GPWASAAPPL TNRMFDVFRQ *
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1167175RRARTKLKQ
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Mtr.170390.0leaf| root
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Predominantly expressed in leaves and stems. {ECO:0000269|PubMed:8106086}.
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapMedtr4g100550.1
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
GenBankAC1490790.0AC149079.9 Medicago truncatula chromosome 8 clone mth2-75i8, complete sequence.
GenBankAC1536430.0AC153643.25 Medicago truncatula chromosome 8 clone mth2-109d3, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003608673.20.0homeobox-leucine zipper protein HAT4
SwissprotQ054661e-103HAT4_ARATH; Homeobox-leucine zipper protein HAT4
TrEMBLG7JHP90.0G7JHP9_MEDTR; Homeobox associated leucine zipper protein
STRINGAES908700.0(Medicago truncatula)
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
AT4G16780.13e-97homeobox protein 2
Publications ? help Back to Top
  1. Young ND, et al.
    The Medicago genome provides insight into the evolution of rhizobial symbioses.
    Nature, 2011. 480(7378): p. 520-4
    [PMID:22089132]
  2. 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]
  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. 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]
  5. Müller-Moulé P, et al.
    YUCCA auxin biosynthetic genes are required for Arabidopsis shade avoidance.
    PeerJ, 2016. 4: p. e2574
    [PMID:27761349]
  6. 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]
  7. 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]
  8. 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]