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.009G075500.4.p
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 MIKC_MADS
Protein Properties Length: 293aa    MW: 32953.2 Da    PI: 9.8245
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.009G075500.4.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF99.51.4e-3164114151
                           S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                SRF-TF   1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 
                           krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva+i+fss+g+lyeys+
  Sobic.009G075500.4.p  64 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSSRGRLYEYSN 114
                           79***********************************************95 PP
2K-box83.83.7e-281352337100
                 K-box   7 ks.leeakaeslqqelakLkkeienLq.....reqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqe 89 
                               +e + ++++qe+a+L+++i nLq     +  R l+G d++++s k+L++Le++L+k+l kiR++Kne+l++++e++q++e elq+
  Sobic.009G075500.4.p 135 AGtIAEVTIQHYKQESARLRQQITNLQnsnspQCFRALIG-DITTMSPKDLKHLETRLDKALGKIRARKNEVLCSELEYMQRREMELQN 222
                           335788899******************888777889***9.6*********************************************** PP

                 K-box  90 enkaLrkklee 100
                           +n +Lr++++e
  Sobic.009G075500.4.p 223 DNLYLRSRVDE 233
                           ******99876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006632.21256116IPR002100Transcription factor, MADS-box
SMARTSM004321.5E-3856115IPR002100Transcription factor, MADS-box
CDDcd002658.11E-4457130No hitNo description
SuperFamilySSF554554.58E-3257128IPR002100Transcription factor, MADS-box
PRINTSPR004041.6E-315878IPR002100Transcription factor, MADS-box
PfamPF003191.2E-2665112IPR002100Transcription factor, MADS-box
PRINTSPR004041.6E-317893IPR002100Transcription factor, MADS-box
PRINTSPR004041.6E-3193114IPR002100Transcription factor, MADS-box
PROSITE profilePS5129712.882143237IPR002487Transcription factor, K-box
PfamPF014862.5E-19143231IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 293 aa     Download sequence    Send to blast
MHIREEQAMP STVTGIMVST LTSAGLKLKE PATMSPGGSA SVAAGFGSAA ERNNGRGKGK  60
TEIKRIENTT NRQVTFCKRR NGLLKKAYEL SVLCDAEVAL IVFSSRGRLY EYSNNSVKAT  120
IERYKKANSD NSSAAGTIAE VTIQHYKQES ARLRQQITNL QNSNSPQCFR ALIGDITTMS  180
PKDLKHLETR LDKALGKIRA RKNEVLCSEL EYMQRREMEL QNDNLYLRSR VDENERAQQT  240
VNMMGAPSTS DYQQQGFIPY DPIRSFLQFN IMQQPQFYSQ QEDRKDFNLG GR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6bz1_A5e-1957144289MEF2 CHIMERA
6bz1_B5e-1957144289MEF2 CHIMERA
6bz1_C5e-1957144289MEF2 CHIMERA
6bz1_D5e-1957144289MEF2 CHIMERA
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sbi.111300.0ovary
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in lodicules, stamens, carpels and ovules during their development. {ECO:0000269|PubMed:16326928}.
UniprotTISSUE SPECIFICITY: Expressed in the lodicule, stamen carpel and ovule primordia.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the development of floral organs. Acts as a C-class protein in association with MADS3. Involved in the control of lodicule number (whorl 2), stamen specification (whorl 3), floral meristem determinacy and regulation of the carpel morphogenesis (whorl 4). Plays a more predominant role in floral meristem determinacy than MADS3. {ECO:0000269|PubMed:16326928}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.009G075500.4.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankMZEZAG1A0.0L18924.1 Corn ZAG1 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021302804.10.0MADS-box transcription factor 3-like isoform X1
SwissprotQ2V0P11e-123MAD58_ORYSJ; MADS-box transcription factor 58
TrEMBLA0A1Z5R1D90.0A0A1Z5R1D9_SORBI; Uncharacterized protein
STRINGSb09g006360.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP64937144
Representative plantOGRP1617761
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G18960.15e-89MIKC_MADS family protein
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]
  2. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]
  3. Li H, et al.
    Rice MADS6 interacts with the floral homeotic genes SUPERWOMAN1, MADS3, MADS58, MADS13, and DROOPING LEAF in specifying floral organ identities and meristem fate.
    Plant Cell, 2011. 23(7): p. 2536-52
    [PMID:21784949]
  4. Sato H,Yoshida K,Mitsuda N,Ohme-Takagi M,Takamizo T
    Male-sterile and cleistogamous phenotypes in tall fescue induced by chimeric repressors of SUPERWOMAN1 and OsMADS58.
    Plant Sci., 2012. 183: p. 183-9
    [PMID:22195592]
  5. Yun D, et al.
    OsMADS16 genetically interacts with OsMADS3 and OsMADS58 in specifying floral patterning in rice.
    Mol Plant, 2013. 6(3): p. 743-56
    [PMID:23300256]
  6. Yan D, et al.
    Curved chimeric palea 1 encoding an EMF1-like protein maintains epigenetic repression of OsMADS58 in rice palea development.
    Plant J., 2015. 82(1): p. 12-24
    [PMID:25647350]
  7. Zheng M, et al.
    DEFORMED FLORAL ORGAN1 (DFO1) regulates floral organ identity by epigenetically repressing the expression of OsMADS58 in rice (Oryza sativa).
    New Phytol., 2015. 206(4): p. 1476-90
    [PMID:25675970]
  8. Chen R, et al.
    A Gene Expression Profiling of Early Rice Stamen Development that Reveals Inhibition of Photosynthetic Genes by OsMADS58.
    Mol Plant, 2015. 8(7): p. 1069-89
    [PMID:25684654]
  9. Hu Y, et al.
    Interactions of OsMADS1 with Floral Homeotic Genes in Rice Flower Development.
    Mol Plant, 2015. 8(9): p. 1366-84
    [PMID:25917758]