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 Sobic.002G233800.1.p
Common NameSb02g027300, SORBIDRAFT_02g027300
Organism
Sorghum bicolor
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum
Family HD-ZIP
Protein Properties Length: 274aa    MW: 29313.4 Da    PI: 4.5034
Description HD-ZIP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.002G233800.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox60.23.4e-1951104356
                           --SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS
              Homeobox   3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 
                           k++++++eq+++Le+ Fe ++++  e++++LA+ lgL+ rqV vWFqNrRa++k
  Sobic.002G233800.1.p  51 KKRRLSAEQVRALERSFEVENKLEPERKARLARDLGLQPRQVAVWFQNRRARWK 104
                           45689************************************************9 PP
2HD-ZIP_I/II134.34.2e-4350142193
           HD-ZIP_I/II   1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLre 89 
                           ekkrrls+eqv++LE+sFe e+kLeperK++lar+LglqprqvavWFqnrRAR+ktkqlE+dy+aL+++ydal++++++L++++++L +
  Sobic.002G233800.1.p  50 EKKRRLSAEQVRALERSFEVENKLEPERKARLARDLGLQPRQVAVWFQNRRARWKTKQLERDYAALRHSYDALRHDHDALRRDKDALLA 138
                           69**************************************************************************************9 PP

           HD-ZIP_I/II  90 elke 93 
                           e+ke
  Sobic.002G233800.1.p 139 EIKE 142
                           9987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF466891.09E-1944108IPR009057Homeodomain-like
PROSITE profilePS5007117.47546106IPR001356Homeobox domain
SMARTSM003891.5E-1849110IPR001356Homeobox domain
PfamPF000461.6E-1651104IPR001356Homeobox domain
CDDcd000861.77E-1851107No hitNo description
Gene3DG3DSA:1.10.10.602.9E-2052113IPR009057Homeodomain-like
PRINTSPR000319.3E-67786IPR000047Helix-turn-helix motif
PROSITE patternPS00027081104IPR017970Homeobox, conserved site
PRINTSPR000319.3E-686102IPR000047Helix-turn-helix motif
PfamPF021831.3E-17106147IPR003106Leucine zipper, homeobox-associated
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009637Biological Processresponse to blue light
GO:0030308Biological Processnegative regulation of cell growth
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0048510Biological Processregulation of timing of transition from vegetative to reproductive phase
GO:0048573Biological Processphotoperiodism, flowering
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: 274 aa     Download sequence    Send to blast
MKRPRGGSPS SLAAMTNPDG DGYGVVGMEA ADADADADEE MMACGGGGGE KKRRLSAEQV  60
RALERSFEVE NKLEPERKAR LARDLGLQPR QVAVWFQNRR ARWKTKQLER DYAALRHSYD  120
ALRHDHDALR RDKDALLAEI KELKAKLGDE EAAASFTSVK AEPAASDGPP PVGVGSSESD  180
SSAVLNDAGP PVPEAQPVPE VQGTLLDDAP CAVVAGASAA AANHGGVFFH GSFLKVEEDE  240
TGLLDDDEPC GGFFAVEQPP PMAWWTEPTE HWN*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
17581ERKARLA
298106RRARWKTKQ
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sbi.74250.0callus| embryo| ovary| root| shoot
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in leaf and floral organ primordia, floral meristems, embryonic axis and cells surrounding the vascular bundles. Expressed in the vasculature of roots, stem, leaves and spikelets, and in the vascular bundle of the scutellum in embryos. {ECO:0000269|PubMed:10732669, ECO:0000269|PubMed:17999151, ECO:0000269|PubMed:18049796}.
UniprotTISSUE SPECIFICITY: Expressed in leaf and floral organ primordia, floral meristems, embryonic axis and cells surrounding the vascular bundles. Expressed in the vasculature of roots, stem, leaves and spikelets, and in the vascular bundle of the scutellum in embryos. {ECO:0000269|PubMed:10732669, ECO:0000269|PubMed:17999151, ECO:0000269|PubMed:18049796}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription activator that binds to the DNA sequence 5'-CAAT[AT]ATTG-3'. May be involved in the regulation of gibberellin signaling. {ECO:0000269|PubMed:10732669, ECO:0000269|PubMed:18049796}.
UniProtProbable transcription activator that binds to the DNA sequence 5'-CAAT[AT]ATTG-3'. May be involved in the regulation of gibberellin signaling. {ECO:0000269|PubMed:10732669, ECO:0000269|PubMed:18049796}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00051PBMTransfer from AT4G40060Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.002G233800.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By gibberellin. Down-regulated in leaves by drought stress. {ECO:0000269|PubMed:17999151, ECO:0000269|PubMed:18049796}.
UniProtINDUCTION: By gibberellin. Down-regulated in leaves by drought stress. {ECO:0000269|PubMed:17999151, ECO:0000269|PubMed:18049796}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0368560.0BT036856.2 Zea mays full-length cDNA clone ZM_BFb0143M01 mRNA, complete cds.
GenBankBT0545000.0BT054500.1 Zea mays full-length cDNA clone ZM_BFc0103D23 mRNA, complete cds.
GenBankEU9645590.0EU964559.1 Zea mays clone 279984 mRNA sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002460380.10.0homeobox-leucine zipper protein HOX4
SwissprotQ6K4981e-125HOX4_ORYSJ; Homeobox-leucine zipper protein HOX4
SwissprotQ9XH371e-125HOX4_ORYSI; Homeobox-leucine zipper protein HOX4
TrEMBLC5X3230.0C5X323_SORBI; Uncharacterized protein
STRINGSb02g027300.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP30093482
Representative plantOGRP12916189
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G40060.11e-41homeobox protein 16
Publications ? help Back to Top
  1. 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]