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 Sevir.4G075400.1.p
Organism
Setaria viridis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Cenchrinae; Setaria
Family MIKC_MADS
Protein Properties Length: 223aa    MW: 24429.4 Da    PI: 5.185
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sevir.4G075400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF82.23.4e-26756251
                        ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
              SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                        rien   rqvtfskRr g++KKAeEL vLCda+va+i+fs tgkl  ++s
  Sevir.4G075400.1.p  7 RIENAAARQVTFSKRRRGLFKKAEELAVLCDADVALIVFSATGKLSQFAS 56
                        8*********************************************9986 PP
2K-box59.51.4e-20871681798
               K-box  17 lqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                          q +++ L++++ +  r +R++ Ge+Le Ls+ eL+q+e++Le +l ++ s+K++l++eqi+elq+k  +l+ en++L+k++
  Sevir.4G075400.1.p  87 EQSKYSGLNEQLAEASRGLRQMRGEELEGLSVDELHQMERKLEAGLHRVLSTKDQLFMEQINELQQKGAQLEGENMRLKKQV 168
                         5777888899999999***************************************************************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004325.2E-32157IPR002100Transcription factor, MADS-box
PROSITE profilePS5006626.268458IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.31E-28472IPR002100Transcription factor, MADS-box
CDDcd002651.56E-38472No hitNo description
PfamPF003192.2E-25754IPR002100Transcription factor, MADS-box
PRINTSPR004041.1E-142035IPR002100Transcription factor, MADS-box
PRINTSPR004041.1E-143556IPR002100Transcription factor, MADS-box
PROSITE profilePS5129713.44784174IPR002487Transcription factor, K-box
PfamPF014861.0E-1888168IPR002487Transcription 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: 223 aa     Download sequence    Send to blast
MAREIRRIEN AAARQVTFSK RRRGLFKKAE ELAVLCDADV ALIVFSATGK LSQFASSSMN  60
DIIDKYSTHS KNLGKSNQQP PIDLNVEQSK YSGLNEQLAE ASRGLRQMRG EELEGLSVDE  120
LHQMERKLEA GLHRVLSTKD QLFMEQINEL QQKGAQLEGE NMRLKKQVPQ VPTAGTAVVA  180
ADTENVLTED GQSSESVMTA LHSGSSNDND DGSDISLKLS LP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A6e-18470773MEF2C
5f28_B6e-18470773MEF2C
5f28_C6e-18470773MEF2C
5f28_D6e-18470773MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSevir.4G075400.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ4306350.0AJ430635.1 Zea mays partial mRNA for putative MADS-domain transcription factor (m21 gene).
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004964865.11e-161MADS-box transcription factor 55
SwissprotQ69TG51e-115MAD55_ORYSJ; MADS-box transcription factor 55
TrEMBLA0A368QS861e-160A0A368QS86_SETIT; Uncharacterized protein
STRINGPavir.Da01333.1.p1e-143(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP12213697
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G22540.15e-61MIKC_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. Lee S,Choi SC,An G
    Rice SVP-group MADS-box proteins, OsMADS22 and OsMADS55, are negative regulators of brassinosteroid responses.
    Plant J., 2008. 54(1): p. 93-105
    [PMID:18182025]
  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. 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]