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 Sof003809
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: 233aa    MW: 26842 Da    PI: 9.7448
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
gnl|UG|Sof#S17257029PU_unrefUnigeneView CDS
PUT-157a-Saccharum_officinarum-65734PU_refplantGDBView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF91.83.2e-292676151
               S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
     SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
               krien + rqvtfskRrng+lKKA+ELSvLCdaeva+++fs++gkl+ey+s
  Sof003809 26 KRIENPTSRQVTFSKRRNGLLKKAFELSVLCDAEVALVVFSPRGKLFEYAS 76
               79***********************************************86 PP
2K-box67.93.4e-2396188799
      K-box   7 ksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                +++ +++ e+ + +++ L k++e L   +R+llGe Le++s++eL++Le +Leksl  iR +K+ ll eq+++l++ke +l+++n++Lr+k +
  Sof003809  96 NKTIQQDIEQVKADAEGLAKKLEALDAYKRKLLGERLEECSIEELHSLEVKLEKSLHCIRGRKTMLLEEQVNKLKEKEMNLRKNNEDLREKCK 188
                3366788999********************************************************************************976 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.4E-391877IPR002100Transcription factor, MADS-box
PROSITE profilePS5006630.9641878IPR002100Transcription factor, MADS-box
PROSITE patternPS0035002074IPR002100Transcription factor, MADS-box
CDDcd002656.00E-422092No hitNo description
SuperFamilySSF554556.8E-3320100IPR002100Transcription factor, MADS-box
PRINTSPR004041.1E-302040IPR002100Transcription factor, MADS-box
PfamPF003198.3E-272774IPR002100Transcription factor, MADS-box
PRINTSPR004041.1E-304055IPR002100Transcription factor, MADS-box
PRINTSPR004041.1E-305576IPR002100Transcription factor, MADS-box
PfamPF014861.8E-23100188IPR002487Transcription factor, K-box
PROSITE profilePS5129712.941103193IPR002487Transcription 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: 233 aa     Download sequence    Send to blast
XGRSRLRFDW SSRPRSRMVR GKTQMKRIEN PTSRQVTFSK RRNGLLKKAF ELSVLCDAEV  60
ALVVFSPRGK LFEYASGSVQ KTIERYRTYT KDNVSNKTIQ QDIEQVKADA EGLAKKLEAL  120
DAYKRKLLGE RLEECSIEEL HSLEVKLEKS LHCIRGRKTM LLEEQVNKLK EKEMNLRKNN  180
EDLREKCKKQ PPMLMAXXXX XAPAVITVED ESPEPKDDXV DVETELVIGL PGX
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A4e-201889172MEF2C
5f28_B4e-201889172MEF2C
5f28_C4e-201889172MEF2C
5f28_D4e-201889172MEF2C
6byy_A4e-201890173MEF2 CHIMERA
6byy_B4e-201890173MEF2 CHIMERA
6byy_C4e-201890173MEF2 CHIMERA
6byy_D4e-201890173MEF2 CHIMERA
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sof.205180.0bud| crown| inflorescence| leaf| meristem| root| stem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Low expression in the young panicle continues to decline as the organ mature. {ECO:0000269|PubMed:15144377, ECO:0000269|PubMed:17166135}.
UniprotTISSUE SPECIFICITY: Expressed in mature leaves and at low levels in roots and young panicles. {ECO:0000269|PubMed:15144377, ECO:0000269|PubMed:17166135}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor active in flowering time control. May control internode elongation and promote floral transition phase. May act upstream of the floral regulators MADS1, MADS14, MADS15 and MADS18 in the floral induction pathway. {ECO:0000269|PubMed:15144377, ECO:0000269|PubMed:17166135}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002465961.11e-133MADS-box transcription factor 50
RefseqXP_021307505.11e-133MADS-box transcription factor 50
SwissprotQ9XJ601e-117MAD50_ORYSJ; MADS-box transcription factor 50
TrEMBLA0A1Z5SBR01e-131A0A1Z5SBR0_SORBI; Uncharacterized protein
STRINGSb01g049020.11e-132(Sorghum bicolor)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G45660.11e-70AGAMOUS-like 20
Publications ? help Back to Top
  1. Thomson MJ,Edwards JD,Septiningsih EM,Harrington SE,McCouch SR
    Substitution mapping of dth1.1, a flowering-time quantitative trait locus (QTL) associated with transgressive variation in rice, reveals multiple sub-QTL.
    Genetics, 2006. 172(4): p. 2501-14
    [PMID:16452146]
  2. Park SJ, et al.
    Rice Indeterminate 1 (OsId1) is necessary for the expression of Ehd1 (Early heading date 1) regardless of photoperiod.
    Plant J., 2008. 56(6): p. 1018-29
    [PMID:18774969]
  3. Lee S,Jeong DH,An G
    A possible working mechanism for rice SVP-group MADS-box proteins as negative regulators of brassinosteroid responses.
    Plant Signal Behav, 2008. 3(7): p. 471-4
    [PMID:19704489]
  4. Maas LF,McClung A,McCouch S
    Dissection of a QTL reveals an adaptive, interacting gene complex associated with transgressive variation for flowering time in rice.
    Theor. Appl. Genet., 2010. 120(5): p. 895-908
    [PMID:19949767]
  5. Sun C, et al.
    The histone methyltransferase SDG724 mediates H3K36me2/3 deposition at MADS50 and RFT1 and promotes flowering in rice.
    Plant Cell, 2012. 24(8): p. 3235-47
    [PMID:22892321]
  6. Choi SC, et al.
    Trithorax group protein Oryza sativa Trithorax1 controls flowering time in rice via interaction with early heading date3.
    Plant Physiol., 2014. 164(3): p. 1326-37
    [PMID:24420930]
  7. Núñez-López L,Aguirre-Cruz A,Barrera-Figueroa BE,Peña-Castro JM
    Improvement of enzymatic saccharification yield in Arabidopsis thaliana by ectopic expression of the rice SUB1A-1 transcription factor.
    PeerJ, 2015. 3: p. e817
    [PMID:25780769]
  8. Jin J, et al.
    MORF-RELATED GENE702, a Reader Protein of Trimethylated Histone H3 Lysine 4 and Histone H3 Lysine 36, Is Involved in Brassinosteroid-Regulated Growth and Flowering Time Control in Rice.
    Plant Physiol., 2015. 168(4): p. 1275-85
    [PMID:25855537]
  9. Liu X, et al.
    Brassinosteroid (BR) biosynthetic gene lhdd10 controls late heading and plant height in rice (Oryza sativa L.).
    Plant Cell Rep., 2016. 35(2): p. 357-68
    [PMID:26518431]
  10. Hwang YH, et al.
    Functional conservation of rice OsNF-YB/YC and Arabidopsis AtNF-YB/YC proteins in the regulation of flowering time.
    Plant Cell Rep., 2016. 35(4): p. 857-65
    [PMID:26754793]
  11. Shibaya T, et al.
    Hd18, Encoding Histone Acetylase Related to Arabidopsis FLOWERING LOCUS D, is Involved in the Control of Flowering Time in Rice.
    Plant Cell Physiol., 2016. 57(9): p. 1828-38
    [PMID:27318280]
  12. Alter P, et al.
    Flowering Time-Regulated Genes in Maize Include the Transcription Factor ZmMADS1.
    Plant Physiol., 2016. 172(1): p. 389-404
    [PMID:27457125]