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 Sof018729
Organism
Saccharum officinarum
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; Saccharinae; Saccharum; Saccharum officinarum complex
Family MIKC_MADS
Protein Properties Length: 153aa    MW: 17581.1 Da    PI: 8.6374
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
gnl|UG|Sof#S17456514PU_refUnigeneView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF89.12.4e-281059251
               ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
     SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
               rienk+ rqvtf+kRrng+lKKA+ELS+LCdaeva+++fs+ g+ly +ss
  Sof018729 10 RIENKISRQVTFAKRRNGLLKKAYELSILCDAEVALVLFSHAGRLYQFSS 59
               9***********************************************96 PP
2K-box55.72.1e-1983143969
      K-box   9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskK 69 
                 ++ ++++ +qe+ kLk+++e Lq++qR+llGedL +L   eL qLe+q++k  ++  + +
  Sof018729  83 PSSDEMQNNYQEYVKLKARVEVLQHSQRNLLGEDLAPLGPSELDQLESQVDKTFEQLDQER 143
                567889**********************************************998876665 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.02161IPR002100Transcription factor, MADS-box
SMARTSM004322.9E-36160IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.03E-30284IPR002100Transcription factor, MADS-box
CDDcd002654.93E-40279No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004041.7E-29323IPR002100Transcription factor, MADS-box
PfamPF003194.9E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004041.7E-292338IPR002100Transcription factor, MADS-box
PRINTSPR004041.7E-293859IPR002100Transcription factor, MADS-box
PfamPF014861.3E-1385138IPR002487Transcription factor, K-box
PROSITE profilePS512978.688153IPR002487Transcription 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: 153 aa     Download sequence    Send to blast
MGRGKVVLQR IENKISRQVT FAKRRNGLLK KAYELSILCD AEVALVLFSH AGRLYQFSSS  60
SNLLKTLERY QRYIYASADA AVPSSDEMQN NYQEYVKLKA RVEVLQHSQR NLLGEDLAPL  120
GPSELDQLES QVDKTFEQLD QERLKCYLMN FAT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P1e-19173172Myocyte-specific enhancer factor 2B
1tqe_Q1e-19173172Myocyte-specific enhancer factor 2B
1tqe_R1e-19173172Myocyte-specific enhancer factor 2B
1tqe_S1e-19173172Myocyte-specific enhancer factor 2B
6c9l_A1e-19173172Myocyte-specific enhancer factor 2B
6c9l_B1e-19173172Myocyte-specific enhancer factor 2B
6c9l_C1e-19173172Myocyte-specific enhancer factor 2B
6c9l_D1e-19173172Myocyte-specific enhancer factor 2B
6c9l_E1e-19173172Myocyte-specific enhancer factor 2B
6c9l_F1e-19173172Myocyte-specific enhancer factor 2B
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sof.125880.0inflorescence| leaf| seed
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Highly expressed in leaves and at low levels in roots and spikelets (rice flower). {ECO:0000269|Ref.7}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021311786.12e-92MADS-box transcription factor 34
SwissprotQ6Q9H62e-84MAD34_ORYSJ; MADS-box transcription factor 34
TrEMBLC5X0931e-92C5X093_SORBI; Uncharacterized protein
STRINGSb01g007780.12e-93(Sorghum bicolor)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G15800.16e-62MIKC_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]