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 OBART10G18570.1
Organism
Oryza barthii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
Family HD-ZIP
Protein Properties Length: 339aa    MW: 36417.9 Da    PI: 9.4689
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OBART10G18570.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox59.74.6e-19155209256
                      T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
         Homeobox   2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                      rk+ +++k+q  +Le+ F+++++++ ++++ LA++l+L+ rqV vWFqNrRa+ k
  OBART10G18570.1 155 RKKLRLSKDQAAVLEDTFKEHNTLNPKQKAALARQLNLKPRQVEVWFQNRRARTK 209
                      788899***********************************************98 PP
2HD-ZIP_I/II1215.9e-39155240186
      HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekevee 86 
                      +kk+rlsk+q+++LE++F+e+++L+p++K++lar+L+l+prqv+vWFqnrRARtk+kq+E+d+e Lkr++++l++en+rL++e + 
  OBART10G18570.1 155 RKKLRLSKDQAAVLEDTFKEHNTLNPKQKAALARQLNLKPRQVEVWFQNRRARTKLKQTEVDCELLKRCCETLTDENRRLHRELQV 240
                      69********************************************************************************9875 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046181.9E-2819135IPR006712HD-ZIP protein, N-terminal
Gene3DG3DSA:1.10.10.607.0E-19142210IPR009057Homeodomain-like
SuperFamilySSF466899.41E-19144212IPR009057Homeodomain-like
PROSITE profilePS5007117.167151211IPR001356Homeobox domain
SMARTSM003891.0E-16153215IPR001356Homeobox domain
PfamPF000461.9E-16155209IPR001356Homeobox domain
CDDcd000863.37E-15155212No hitNo description
PROSITE patternPS000270186209IPR017970Homeobox, conserved site
SMARTSM003403.2E-15211254IPR003106Leucine zipper, homeobox-associated
PfamPF021833.5E-8211239IPR003106Leucine 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: 339 aa     Download sequence    Send to blast
MEMMVHGRRD EQYGGLGLGL GLGLSLGVAG GAADDEQPPP RRGAAPPPQQ QLCGWNGGGL  60
FSSSSSDHRG RSAMMACHDV IEMPFLRGID VNRAPAAETT TTTARGPSCS EEDEEPGASS  120
PNSTLSSLSG KRGAPSAATA AAAASDDEDS GGGSRKKLRL SKDQAAVLED TFKEHNTLNP  180
KQKAALARQL NLKPRQVEVW FQNRRARTKL KQTEVDCELL KRCCETLTDE NRRLHRELQV  240
RRRAHVLRAQ VPDVLRQERA AVEVEPRPER RRDGLATAAA APHHLYGARV PPPTTLTMCP  300
SCERVASAAT TTRNNSGAAP ARPVPTRPWP PAAAQRSSA
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1153159SRKKLRL
2203211RRARTKLKQ
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription repressor involved leaf development. Binds to the DNA sequence 5'-CAAT[GC]ATTG-3'. May act as a regulatory switch to specify provascular cell fate. {ECO:0000269|PubMed:10732669, ECO:0000269|PubMed:10934011, ECO:0000269|PubMed:9076993}.
UniProtProbable transcription repressor involved leaf development. Binds to the DNA sequence 5'-CAAT[GC]ATTG-3'. May act as a regulatory switch to specify provascular cell fate. {ECO:0000269|PubMed:10732669, ECO:0000269|PubMed:9076993}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin and sucrose in primary root apical region. By wounding in leaves. {ECO:0000269|PubMed:10732669}.
UniProtINDUCTION: By auxin and sucrose in primary root apical region. By wounding in leaves. {ECO:0000269|PubMed:10934011}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0654040.0AK065404.1 Oryza sativa Japonica Group cDNA clone:J013006I17, full insert sequence.
GenBankCT8329440.0CT832944.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCRA107F07, full insert sequence.
GenBankX966810.0X96681.2 Oryza sativa mRNA for DNA-binding protein (Oshox1 gene).
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015613269.11e-157homeobox-leucine zipper protein HOX1
SwissprotQ406911e-158HOX1_ORYSI; Homeobox-leucine zipper protein HOX1
SwissprotQ7XC541e-158HOX1_ORYSJ; Homeobox-leucine zipper protein HOX1
TrEMBLA0A0D3HGM20.0A0A0D3HGM2_9ORYZ; Uncharacterized protein
STRINGOBART10G18570.10.0(Oryza barthii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP25873889
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G44910.13e-46homeobox-leucine zipper protein 4
Publications ? help Back to Top
  1. Scarpella E,Boot KJ,Rueb S,Meijer AH
    The procambium specification gene Oshox1 promotes polar auxin transport capacity and reduces its sensitivity toward inhibition.
    Plant Physiol., 2002. 130(3): p. 1349-60
    [PMID:12428000]
  2. Scarpella E,Rueb S,Meijer AH
    The RADICLELESS1 gene is required for vascular pattern formation in rice.
    Development, 2003. 130(4): p. 645-58
    [PMID:12505996]
  3. Rice Chromosome 10 Sequencing Consortium
    In-depth view of structure, activity, and evolution of rice chromosome 10.
    Science, 2003. 300(5625): p. 1566-9
    [PMID:12791992]
  4. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  5. Scarpella E,Simons EJ,Meijer AH
    Multiple regulatory elements contribute to the vascular-specific expression of the rice HD-Zip gene Oshox1 in Arabidopsis.
    Plant Cell Physiol., 2005. 46(8): p. 1400-10
    [PMID:15964905]
  6. Meijer AH,Ouwerkerk PB,Hoge JH
    Vectors for transcription factor cloning and target site identification by means of genetic selection in yeast.
    Yeast, 1998. 14(15): p. 1407-15
    [PMID:9848232]