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 Spipo0G0069200
Organism
Spirodela polyrhiza
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Alismatales; Araceae; Lemnoideae; Spirodela
Family MIKC_MADS
Protein Properties Length: 203aa    MW: 23253.7 Da    PI: 8.917
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Spipo0G0069200genomeMIPS/IBISView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF87.76.4e-281059251
                    ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
          SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                    +ien + rqvtfskRr+g+lKKA+ELSvLCda++ +i+fs++gk++e++s
  Spipo0G0069200 10 KIENPISRQVTFSKRRKGLLKKAHELSVLCDAQIGLIVFSERGKMKEFCS 59
                    69**********************************************96 PP
2K-box47.86.2e-17841431271
           K-box  12 akaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKne 71 
                      + ++ ++e++++++++++++  ++ ++G++L+ Lsl  L+qLe+qLe s++k+R++K e
  Spipo0G0069200  84 DNKQQVCTEVTRMRRKNDEIEARIKWYMGQELTGLSLGSLNQLEEQLEMSVNKVRTRKLE 143
                     57899****************************************************965 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004322.0E-39160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006630.628161IPR002100Transcription factor, MADS-box
CDDcd002651.43E-39272No hitNo description
SuperFamilySSF554554.97E-31280IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004045.1E-28323IPR002100Transcription factor, MADS-box
PfamPF003191.5E-241057IPR002100Transcription factor, MADS-box
PRINTSPR004045.1E-282338IPR002100Transcription factor, MADS-box
PRINTSPR004045.1E-283859IPR002100Transcription factor, MADS-box
PfamPF014862.2E-1484142IPR002487Transcription factor, K-box
PROSITE profilePS512979.72186194IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0008360Biological Processregulation of cell shape
GO:0019252Biological Processstarch biosynthetic process
GO:0043068Biological Processpositive regulation of programmed cell death
GO:0048316Biological Processseed development
GO:0048481Biological Processplant ovule development
GO:0080155Biological Processregulation of double fertilization forming a zygote and endosperm
GO:2000029Biological Processregulation of proanthocyanidin biosynthetic process
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: 203 aa     Download sequence    Send to blast
MGRGKIEIRK IENPISRQVT FSKRRKGLLK KAHELSVLCD AQIGLIVFSE RGKMKEFCSD  60
PPSSMKHIIE RYCRANNIGI EDIDNKQQVC TEVTRMRRKN DEIEARIKWY MGQELTGLSL  120
GSLNQLEEQL EMSVNKVRTR KLEQQAVAAA AEYKIADGQV LDEIAPFYNW ESQRNLLQLS  180
PQLQGFRLQG ESQELTLTHQ GF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A6e-16176173MEF2C
5f28_B6e-16176173MEF2C
5f28_C6e-16176173MEF2C
5f28_D6e-16176173MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020109780.17e-70MADS-box protein AeAP3-2-like isoform X2
SwissprotQ6H7112e-48MAD29_ORYSJ; MADS-box transcription factor 29
TrEMBLA0A2H3Z3T11e-64A0A2H3Z3T1_PHODC; MADS-box protein AeAP3-2-like
STRINGXP_008807981.12e-65(Phoenix dactylifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP185037100
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G23260.34e-42MIKC_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. Li M,Sun P,Zhou H,Chen S,Yu S
    Identification of quantitative trait loci associated with germination using chromosome segment substitution lines of rice (Oryza sativa L.).
    Theor. Appl. Genet., 2011. 123(3): p. 411-20
    [PMID:21512773]
  3. Yin LL,Xue HW
    The MADS29 transcription factor regulates the degradation of the nucellus and the nucellar projection during rice seed development.
    Plant Cell, 2012. 24(3): p. 1049-65
    [PMID:22408076]
  4. Yang X, et al.
    Live and let die - the B(sister) MADS-box gene OsMADS29 controls the degeneration of cells in maternal tissues during seed development of rice (Oryza sativa).
    PLoS ONE, 2012. 7(12): p. e51435
    [PMID:23251532]
  5. Nayar S,Sharma R,Tyagi AK,Kapoor S
    Functional delineation of rice MADS29 reveals its role in embryo and endosperm development by affecting hormone homeostasis.
    J. Exp. Bot., 2013. 64(14): p. 4239-53
    [PMID:23929654]
  6. Nayar S,Kapoor M,Kapoor S
    Post-translational regulation of rice MADS29 function: homodimerization or binary interactions with other seed-expressed MADS proteins modulate its translocation into the nucleus.
    J. Exp. Bot., 2014. 65(18): p. 5339-50
    [PMID:25096923]
  7. Schilling S, et al.
    Non-canonical structure, function and phylogeny of the Bsister MADS-box gene OsMADS30 of rice (Oryza sativa).
    Plant J., 2015. 84(6): p. 1059-72
    [PMID:26473514]