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 Sof014122
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: 212aa    MW: 24686.8 Da    PI: 9.4629
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PUT-157a-Saccharum_officinarum-69717PU_refplantGDBView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF84.46.8e-27959151
               S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
     SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
               krien++nrqvtfskRr+g+ KKA E+ vLCdaev v+ifss gkl++y+s
  Sof014122  9 KRIENSTNRQVTFSKRRAGLVKKAREIGVLCDAEVGVVIFSSGGKLHDYCS 59
               79***********************************************96 PP
2K-box64.63.6e-2271167197
      K-box   1 yqkssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkk 97 
                yq++sgk l+++k++ l+ e++++kke++n+q ++Rhl+GedL+sL+ +eL  +e+ L+++ ++ R+k+++++++  ++ ++ e+e++    +++++
  Sof014122  71 YQTNSGKILWDEKHKILSAEIDRVKKENDNMQIQLRHLKGEDLNSLQPRELIAIEEGLQNGQTNMRDKQMDHWRMRKRNGKMLEDEHRMLSFRMHQQ 167
                89999999***************************************************************************99998888777776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.861161IPR002100Transcription factor, MADS-box
SMARTSM004325.2E-40160IPR002100Transcription factor, MADS-box
CDDcd002656.63E-43280No hitNo description
SuperFamilySSF554553.92E-33295IPR002100Transcription factor, MADS-box
PRINTSPR004042.4E-28323IPR002100Transcription factor, MADS-box
PfamPF003192.9E-241057IPR002100Transcription factor, MADS-box
PRINTSPR004042.4E-282338IPR002100Transcription factor, MADS-box
PRINTSPR004042.4E-283859IPR002100Transcription factor, MADS-box
PfamPF014864.3E-1482164IPR002487Transcription factor, K-box
PROSITE profilePS5129712.32284170IPR002487Transcription 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: 212 aa     Download sequence    Send to blast
MGRGKIEIKR IENSTNRQVT FSKRRAGLVK KAREIGVLCD AEVGVVIFSS GGKLHDYCSP  60
RTSLSRILEK YQTNSGKILW DEKHKILSAE IDRVKKENDN MQIQLRHLKG EDLNSLQPRE  120
LIAIEEGLQN GQTNMRDKQM DHWRMRKRNG KMLEDEHRML SFRMHQQAGD LSGGMKELEI  180
GYHQVQHDRD FTSQMPFTFP VQXNHPNLQE DE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P6e-19175173Myocyte-specific enhancer factor 2B
1tqe_Q6e-19175173Myocyte-specific enhancer factor 2B
1tqe_R6e-19175173Myocyte-specific enhancer factor 2B
1tqe_S6e-19175173Myocyte-specific enhancer factor 2B
6c9l_A6e-19175173Myocyte-specific enhancer factor 2B
6c9l_B6e-19175173Myocyte-specific enhancer factor 2B
6c9l_C6e-19175173Myocyte-specific enhancer factor 2B
6c9l_D6e-19175173Myocyte-specific enhancer factor 2B
6c9l_E6e-19175173Myocyte-specific enhancer factor 2B
6c9l_F6e-19175173Myocyte-specific enhancer factor 2B
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sof.104530.0crown| inflorescence
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Highly expressed in lodicules, at intermediate levels in stamens, and weakly in carpels. Expressed in pollen. {ECO:0000269|PubMed:10394955, ECO:0000269|PubMed:12905025, ECO:0000269|Ref.1}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the development of floral organs. B-class protein required for normal development of lodicules and stamens (whorls 2 and 3). May function as a heterodimer with MADS16. {ECO:0000269|PubMed:9869408}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002439824.11e-150MADS-box transcription factor 4
SwissprotQ407031e-126MADS4_ORYSJ; MADS-box transcription factor 4
TrEMBLC5YY691e-148C5YY69_SORBI; Uncharacterized protein
STRINGSb09g020770.11e-149(Sorghum bicolor)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G20240.12e-70MIKC_MADS family protein
Publications ? help Back to Top
  1. Ronai Z, et al.
    Transcription factor binding study by capillary zone electrophoretic mobility shift assay.
    Electrophoresis, 2003. 24(1-2): p. 96-100
    [PMID:12652578]
  2. 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]
  3. Kang HG,An G
    Morphological alterations by ectopic expression of the rice OsMADS4 gene in tobacco plants.
    Plant Cell Rep., 2005. 24(2): p. 120-6
    [PMID:15703945]
  4. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]
  5. Chen C, et al.
    Adapting rice anther culture to gene transformation and RNA interference.
    Sci. China, C, Life Sci., 2006. 49(5): p. 414-28
    [PMID:17172048]
  6. Yoshida H, et al.
    superwoman1-cleistogamy, a hopeful allele for gene containment in GM rice.
    Plant Biotechnol. J., 2007. 5(6): p. 835-46
    [PMID:17764519]
  7. Yao SG,Ohmori S,Kimizu M,Yoshida H
    Unequal genetic redundancy of rice PISTILLATA orthologs, OsMADS2 and OsMADS4, in lodicule and stamen development.
    Plant Cell Physiol., 2008. 49(5): p. 853-7
    [PMID:18378529]
  8. Seok HY, et al.
    Rice ternary MADS protein complexes containing class B MADS heterodimer.
    Biochem. Biophys. Res. Commun., 2010. 401(4): p. 598-604
    [PMID:20888318]
  9. Wang H, et al.
    OsMADS32 interacts with PI-like proteins and regulates rice flower development.
    J Integr Plant Biol, 2015. 57(5): p. 504-13
    [PMID:25081486]