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.010G021200.1.p
Common NameSb10g002020, SORBIDRAFT_10g002020
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 BBR-BPC
Protein Properties Length: 330aa    MW: 36433.2 Da    PI: 10.0447
Description BBR-BPC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.010G021200.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GAGA_bind391.11.7e-11913291301
             GAGA_bind   1 mdddgsre.rnkg.yye........paaslkenlglqlmssiaerdakirernlalsekkaavaerdmaflqrdkalaernkalverdn 79 
                           md+ g ++ r+++ +y+        p+++lk++ +++l+++++e+d++irer++al+ekkaa+aerdmaf+qrd+a+aern+a+verdn
  Sobic.010G021200.1.p   1 MDNLGRENgRQRPdQYKavhtqwmmPQRQLKDHHSMNLLALMNEKDSAIRERDHALAEKKAAIAERDMAFAQRDAAMAERNAAIVERDN 89 
                           999999999****99*99***9999889************************************************************* PP

             GAGA_bind  80 kllalllvensla...salpvgvq.vlsgtksidslqqlse.....pqledsave.lreeeklealpieeaaeeakekkkkkkrqrakk 158
                           +l+al+l++++     + +++ ++  l+gtk++++++qls+      ql+ds+++ +re++++ea+pi +a+ ++ ++kk++k++++++
  Sobic.010G021200.1.p  90 ALAALELARTNGFnmnNGNGFHQGpPLNGTKNVHHHDQLSHvqtspLQLADSPYDhVREMHISEAYPIATAPGTIGKAKKPRKSNSQAS 178
                           *****998887654434444444324899999999999888899999********9********************************* PP

             GAGA_bind 159 pkekkak..kkkkksekskkkvkkesad.er.....skaekksidlvlngvslDestlPvPvCsCtGalrqCYkWGnGGWqSaCCttti 239
                           p+++ +   +k+kk + ++k+  ++++  ++     +k+e+k++dl+ln+v++Dest+P+P+CsCtG l+qCYkWGnGGWqS+CCtt++
  Sobic.010G021200.1.p 179 PLKRPSGvlRKTKKATGDWKNGGMSGVAgDSaraavMKNEWKDQDLGLNQVAFDESTMPAPACSCTGELHQCYKWGNGGWQSSCCTTNM 267
                           ***9999887777788999999999887544789999**************************************************** PP

             GAGA_bind 240 SvyPLPvstkrrgaRiagrKmSqgafkklLekLaaeGydlsnpvDLkdhWAkHGtnkfvtir 301
                           S+yPLPv+++rr+aR++grKmS+gaf+klL++LaaeG+dls pvDLkdhWAkHGtn+++tir
  Sobic.010G021200.1.p 268 SMYPLPVMPNRRHARMGGRKMSGGAFTKLLSRLAAEGHDLSIPVDLKDHWAKHGTNRYITIR 329
                           *************************************************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM012265.7E-1621329IPR010409GAGA-binding transcriptional activator
PfamPF062174.0E-9712329IPR010409GAGA-binding transcriptional activator
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009723Biological Processresponse to ethylene
GO:0005730Cellular Componentnucleolus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0042803Molecular Functionprotein homodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 330 aa     Download sequence    Send to blast
MDNLGRENGR QRPDQYKAVH TQWMMPQRQL KDHHSMNLLA LMNEKDSAIR ERDHALAEKK  60
AAIAERDMAF AQRDAAMAER NAAIVERDNA LAALELARTN GFNMNNGNGF HQGPPLNGTK  120
NVHHHDQLSH VQTSPLQLAD SPYDHVREMH ISEAYPIATA PGTIGKAKKP RKSNSQASPL  180
KRPSGVLRKT KKATGDWKNG GMSGVAGDSA RAAVMKNEWK DQDLGLNQVA FDESTMPAPA  240
CSCTGELHQC YKWGNGGWQS SCCTTNMSMY PLPVMPNRRH ARMGGRKMSG GAFTKLLSRL  300
AAEGHDLSIP VDLKDHWAKH GTNRYITIR*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sbi.83840.0callus| leaf
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional regulator that specifically binds to GA-rich elements (GAGA-repeats) present in regulatory sequences of genes involved in developmental processes. {ECO:0000250}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00540DAPTransfer from AT5G42520Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.010G021200.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKF1847590.0KF184759.1 Saccharum hybrid cultivar R570 clone BAC 015H09 complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002437754.10.0barley B recombinant-like protein D
SwissprotQ5VSA80.0BBRD_ORYSJ; Barley B recombinant-like protein D
TrEMBLC5Z3A80.0C5Z3A8_SORBI; Uncharacterized protein
STRINGSb10g002020.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP62263756
Representative plantOGRP28411331
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G42520.14e-98basic pentacysteine 6
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]