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 ORGLA03G0315000.1
Organism
Oryza glaberrima
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 MIKC_MADS
Protein Properties Length: 239aa    MW: 26835.5 Da    PI: 7.0448
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORGLA03G0315000.1genomeAGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF86.91.2e-271059251
                       ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
             SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                       +ienk+ rqvtf+kRrng+lKKA+ELS+LCdaeva+++fs+ g+ly +ss
  ORGLA03G0315000.1 10 PIENKISRQVTFAKRRNGLLKKAYELSILCDAEVALVLFSHAGRLYQFSS 59
                       7***********************************************96 PP
2K-box921.1e-30791745100
              K-box   5 sgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrk 96 
                        +  + ++ ++++ +qe+ +Lk+ +e Lq++qR+llGedL +L  +eL+qLe+q+ + lk+iRs+K+++ll+++ +l++ke++lq++n+ L++
  ORGLA03G0315000.1  79 DAAAPTSDEMQNNYQEYVNLKAHVEILQQSQRNLLGEDLAPLATNELEQLESQVVRTLKQIRSRKTQVLLDELCDLKRKEQMLQDANRVLKR 170
                        444567889*********************************************************************************** PP

              K-box  97 klee 100
                        klee
  ORGLA03G0315000.1 171 KLEE 174
                        *987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004322.3E-34160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006630.277161IPR002100Transcription factor, MADS-box
CDDcd002655.36E-40279No hitNo description
SuperFamilySSF554551.96E-30283IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004047.1E-28323IPR002100Transcription factor, MADS-box
PfamPF003192.0E-251157IPR002100Transcription factor, MADS-box
PRINTSPR004047.1E-282338IPR002100Transcription factor, MADS-box
PRINTSPR004047.1E-283859IPR002100Transcription factor, MADS-box
PfamPF014861.4E-2685172IPR002487Transcription factor, K-box
PROSITE profilePS5129714.81188178IPR002487Transcription 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: 239 aa     Download sequence    Send to blast
MGRGKVVLQP IENKISRQVT FAKRRNGLLK KAYELSILCD AEVALVLFSH AGRLYQFSSS  60
SNMLKTLERY QRYIYASQDA AAPTSDEMQN NYQEYVNLKA HVEILQQSQR NLLGEDLAPL  120
ATNELEQLES QVVRTLKQIR SRKTQVLLDE LCDLKRKEQM LQDANRVLKR KLEEIDVEAA  180
PPQPPWNGNC SNGHGGGGGV FSSEPPQPEH FFQALGLHAV DVNQPPAPPP GGYPPEWMA
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ox0_A2e-219317222101Developmental protein SEPALLATA 3
4ox0_B2e-219317222101Developmental protein SEPALLATA 3
4ox0_C2e-219317222101Developmental protein SEPALLATA 3
4ox0_D2e-219317222101Developmental protein SEPALLATA 3
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapORGLA03G0315000.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0033240.0AB003324.1 Oryza sativa Japonica Group mRNA for MADS box-like protein, complete cds, clone:E31254.
GenBankAY5519170.0AY551917.1 Oryza sativa (japonica cultivar-group) MADS-box protein RMADS212 mRNA, complete cds.
GenBankAY5519220.0AY551922.1 Oryza sativa (japonica cultivar-group) MADS-box protein RMADS217 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015631035.11e-176MADS-box transcription factor 34
SwissprotQ6Q9H61e-177MAD34_ORYSJ; MADS-box transcription factor 34
TrEMBLI1PFK41e-177I1PFK4_ORYGL; Uncharacterized protein
STRINGORGLA03G0315000.11e-178(Oryza glaberrima)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP136182630
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G15800.12e-73MIKC_MADS family protein
Publications ? help Back to Top
  1. Kobayashi K,Maekawa M,Miyao A,Hirochika H,Kyozuka J
    PANICLE PHYTOMER2 (PAP2), encoding a SEPALLATA subfamily MADS-box protein, positively controls spikelet meristem identity in rice.
    Plant Cell Physiol., 2010. 51(1): p. 47-57
    [PMID:19933267]
  2. Gao X, et al.
    The SEPALLATA-like gene OsMADS34 is required for rice inflorescence and spikelet development.
    Plant Physiol., 2010. 153(2): p. 728-40
    [PMID:20395452]
  3. Khanday I,Yadav SR,Vijayraghavan U
    Rice LHS1/OsMADS1 controls floret meristem specification by coordinated regulation of transcription factors and hormone signaling pathways.
    Plant Physiol., 2013. 161(4): p. 1970-83
    [PMID:23449645]
  4. Lin X, et al.
    The pleiotropic SEPALLATA-like gene OsMADS34 reveals that the 'empty glumes' of rice (Oryza sativa) spikelets are in fact rudimentary lemmas.
    New Phytol., 2014. 202(2): p. 689-702
    [PMID:24372518]
  5. Conrad LJ, et al.
    The polycomb group gene EMF2B is essential for maintenance of floral meristem determinacy in rice.
    Plant J., 2014. 80(5): p. 883-94
    [PMID:25279942]
  6. Liu M,Li H,Su Y,Li W,Shi C
    G1/ELE Functions in the Development of Rice Lemmas in Addition to Determining Identities of Empty Glumes.
    Front Plant Sci, 2016. 7: p. 1006
    [PMID:27462334]