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 OGLUM10G18660.1
Organism
Oryza glumaepatula
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: 310aa    MW: 33042.1 Da    PI: 8.9755
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OGLUM10G18660.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox59.94e-19155209256
                      T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
         Homeobox   2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                      rk+ +++k+q  +Le+ F+++++++ ++++ LA++l+L+ rqV vWFqNrRa+ k
  OGLUM10G18660.1 155 RKKLRLSKDQAAVLEDTFKEHNTLNPKQKAALARQLNLKPRQVEVWFQNRRARTK 209
                      788899***********************************************98 PP
2HD-ZIP_I/II126.11.5e-40155244191
      HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreel 91 
                      +kk+rlsk+q+++LE++F+e+++L+p++K++lar+L+l+prqv+vWFqnrRARtk+kq+E+d+e Lkr++++l++en+rL++e +eLr +l
  OGLUM10G18660.1 155 RKKLRLSKDQAAVLEDTFKEHNTLNPKQKAALARQLNLKPRQVEVWFQNRRARTKLKQTEVDCELLKRCCETLTDENRRLHRELQELR-AL 244
                      69*************************************************************************************9.55 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046181.7E-2819135IPR006712HD-ZIP protein, N-terminal
Gene3DG3DSA:1.10.10.606.0E-19142210IPR009057Homeodomain-like
SuperFamilySSF466897.7E-19144212IPR009057Homeodomain-like
PROSITE profilePS5007117.167151211IPR001356Homeobox domain
SMARTSM003891.0E-16153215IPR001356Homeobox domain
PfamPF000461.7E-16155209IPR001356Homeobox domain
CDDcd000861.14E-15155212No hitNo description
PROSITE patternPS000270186209IPR017970Homeobox, conserved site
SMARTSM003401.0E-23211254IPR003106Leucine zipper, homeobox-associated
PfamPF021834.9E-10211245IPR003106Leucine 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: 310 aa     Download sequence    Send to blast
MEMMVHGRRD EQYGGLGLGL GLGLSLGVAG GAADDEQPPP RRGAAPPPQQ QLCGWNGGGL  60
FSSSSSDHRG RSAMMACHDV IEMPFLRGID VNRAPAAETT TTTARGPSCR EEDEEPGASS  120
PNSTLSSLSG KRGAPSAATA AAAASDDEDS GGGSRKKLRL SKDQAAVLED TFKEHNTLNP  180
KQKAALARQL NLKPRQVEVW FQNRRARTKL KQTEVDCELL KRCCETLTDE NRRLHRELQE  240
LRALKLATAA AAPHHLYGAR VPPPTTLTMC PSCERVASAA TTTRNNSGAA PARPVPTRPW  300
PPAAAQRSSA
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-163homeobox-leucine zipper protein HOX1
SwissprotQ406911e-164HOX1_ORYSI; Homeobox-leucine zipper protein HOX1
SwissprotQ7XC541e-164HOX1_ORYSJ; Homeobox-leucine zipper protein HOX1
TrEMBLA0A0E0BDT20.0A0A0E0BDT2_9ORYZ; Uncharacterized protein
STRINGOGLUM10G18660.10.0(Oryza glumipatula)
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
AT5G06710.11e-53homeobox from Arabidopsis thaliana
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]