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 Sevir.9G327100.3.p
Organism
Setaria viridis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Cenchrinae; Setaria
Family HD-ZIP
Protein Properties Length: 346aa    MW: 37117.9 Da    PI: 8.4187
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sevir.9G327100.3.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox51.22.1e-16176228256
                         T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
            Homeobox   2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                         rk+ +++k+q  +Lee F+++++++ +  + LAk+l+L+ rqV vWFqNrRa+ k
  Sevir.9G327100.3.p 176 RKKLRLSKDQAAVLEESFKEHNTLNPK--AALAKQLNLKPRQVEVWFQNRRARTK 228
                         788899******************997..68**********************98 PP
2HD-ZIP_I/II117.66.8e-38176263191
         HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreel 91 
                         +kk+rlsk+q+++LEesF+e+++L+p  K++la++L+l+prqv+vWFqnrRARtk+kq+E+d+e+Lkr++++l+een+rL++ev+eLr +l
  Sevir.9G327100.3.p 176 RKKLRLSKDQAAVLEESFKEHNTLNP--KAALAKQLNLKPRQVEVWFQNRRARTKLKQTEVDCEFLKRCCETLTEENRRLQREVAELR-AL 263
                         69***********************9..79*********************************************************9.55 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046181.9E-2619145IPR006712HD-ZIP protein, N-terminal
Gene3DG3DSA:1.10.10.603.7E-16159228IPR009057Homeodomain-like
SuperFamilySSF466891.92E-15166231IPR009057Homeodomain-like
PROSITE profilePS5007114.042172230IPR001356Homeobox domain
SMARTSM003891.3E-13174234IPR001356Homeobox domain
CDDcd000865.20E-15176231No hitNo description
PfamPF000468.4E-14176228IPR001356Homeobox domain
PROSITE patternPS000270205228IPR017970Homeobox, conserved site
PfamPF021831.4E-10230264IPR003106Leucine zipper, homeobox-associated
SMARTSM003408.8E-23230273IPR003106Leucine 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: 346 aa     Download sequence    Send to blast
MEMAVNARDR EQHGHGGLGL GLSLSLSIAT AAPPPQQQRA ISVAPISSHP APPVPPQPQW  60
WNGGAGLFFS PSSGMVDRSM ERKLQQQPAV AAACHGHEMP FLRGIDVNRA PAAGESRRGC  120
CSEDEEPAAS SPNSTLSSLS GKRPAATRSG DLEGDHTPRA GGASDDEDSG AGGGSRKKLR  180
LSKDQAAVLE ESFKEHNTLN PKAALAKQLN LKPRQVEVWF QNRRARTKLK QTEVDCEFLK  240
RCCETLTEEN RRLQREVAEL RALKLVAPHQ YARMPPPTTL TMCPSCERLA TADEAGRAAR  300
PAAPTGPWGP VPVRPVFVDG MIIDADARPE HPNSGGPVVV EKKSW*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1174180SRKKLRL
2222230RRARTKLKQ
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSevir.9G327100.3.p
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
GenBankEU9424520.0EU942452.1 Zea mays clone 1503625 mRNA sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004983649.10.0homeobox-leucine zipper protein HOX1 isoform X2
SwissprotQ406914e-80HOX1_ORYSI; Homeobox-leucine zipper protein HOX1
SwissprotQ7XC544e-80HOX1_ORYSJ; Homeobox-leucine zipper protein HOX1
TrEMBLA0A368SMY80.0A0A368SMY8_SETIT; Uncharacterized protein
STRINGSi036388m0.0(Setaria italica)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G16780.11e-61homeobox protein 2
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]