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 Sof004102
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: 222aa    MW: 25421.5 Da    PI: 7.9954
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
gnl|UG|Sof#S17338846PU_unrefUnigeneView CDS
PUT-157a-Saccharum_officinarum-16743PU_refplantGDBView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF70.71.3e-222381551
               HHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
     SRF-TF 15 kRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
               kRrng+lKKA+ELSvLCdaeva+iifs++gklye++s
  Sof004102  2 KRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCS 38
               9**********************************96 PP
2K-box100.13.2e-33641559100
      K-box   9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100
                +e++  +s+++e+ kLk++++nLqr+qR+llGedL+sL +keL+qLe+qL++sl++iRs++++++l+q+ +lq++e++l e+nk+Lr+klee
  Sof004102  64 KENELVQSSRNEYLKLKARVDNLQRTQRNLLGEDLGSLGIKELEQLEKQLDSSLRHIRSTRTQHMLDQLTDLQRREQMLCEANKCLRRKLEE 155
                46667899*********************************************************************************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006621.011140IPR002100Transcription factor, MADS-box
SMARTSM004321.3E-13139IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.09E-21267IPR002100Transcription factor, MADS-box
PfamPF003193.7E-18236IPR002100Transcription factor, MADS-box
PRINTSPR004041.9E-19217IPR002100Transcription factor, MADS-box
PRINTSPR004041.9E-191738IPR002100Transcription factor, MADS-box
PfamPF014861.6E-2666153IPR002487Transcription factor, K-box
PROSITE profilePS5129715.52469159IPR002487Transcription 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: 222 aa     Download sequence    Send to blast
XKRRNGLLKK AYELSVLCDA EVALIIFSNR GKLYEFCSGQ SITKTLERYE KSSYGGPDTA  60
VQNKENELVQ SSRNEYLKLK ARVDNLQRTQ RNLLGEDLGS LGIKELEQLE KQLDSSLRHI  120
RSTRTQHMLD QLTDLQRREQ MLCEANKCLR RKLEETSNQV HGQVWENGAN LLGYERHSPP  180
QQAPSHVGNG LFFHPLEAAA EPTLQIGFAP EHMNNFMPTW LP
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ox0_A8e-34541531101Developmental protein SEPALLATA 3
4ox0_B8e-34541531101Developmental protein SEPALLATA 3
4ox0_C8e-34541531101Developmental protein SEPALLATA 3
4ox0_D8e-34541531101Developmental protein SEPALLATA 3
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sof.93660.0seed
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed at early stage of flower development in the spikelet (rice flower) primordia and later in stamen and pistil primordia. Expressed during ovule development in the inner and outer integuments. {ECO:0000269|PubMed:12395189, ECO:0000269|PubMed:9065695}.
UniprotTISSUE SPECIFICITY: Expressed in lodicules, stamens and carpels. {ECO:0000269|PubMed:12395189, ECO:0000269|PubMed:9065695, ECO:0000269|PubMed:9339904}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. May be involved in the control of flowering time. {ECO:0000269|PubMed:9339904, ECO:0000269|Ref.9}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002460491.11e-163MADS-box transcription factor 8
SwissprotQ9SAR11e-142MADS8_ORYSJ; MADS-box transcription factor 8
TrEMBLC5X4Q51e-162C5X4Q5_SORBI; Uncharacterized protein
STRINGSb02g029310.11e-162(Sorghum bicolor)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G24260.12e-77MIKC_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. Jang YH, et al.
    Survey of rice proteins interacting with OsFCA and OsFY proteins which are homologous to the Arabidopsis flowering time proteins, FCA and FY.
    Plant Cell Physiol., 2009. 50(8): p. 1479-92
    [PMID:19561057]
  3. Cui R, et al.
    Functional conservation and diversification of class E floral homeotic genes in rice (Oryza sativa).
    Plant J., 2010. 61(5): p. 767-81
    [PMID:20003164]
  4. Bai X, et al.
    Regulatory role of FZP in the determination of panicle branching and spikelet formation in rice.
    Sci Rep, 2016. 6: p. 19022
    [PMID:26744119]