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 Pahal.E04561.1
Organism
Panicum hallii
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; Panicinae; Panicum
Family MIKC_MADS
Protein Properties Length: 263aa    MW: 30131.3 Da    PI: 9.3107
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pahal.E04561.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF99.11.7e-31959151
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                    krienk+nrqvtfskRrng+lKKA+E+SvLCdaev vi+fs++gklyey++
  Pahal.E04561.1  9 KRIENKINRQVTFSKRRNGLLKKAHEISVLCDAEVGVIVFSPKGKLYEYAT 59
                    79***********************************************86 PP
2K-box110.81.5e-36781744100
           K-box   4 ssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                     +   s+e++ + ++++e++kLk++ie++q+ ++hl+GedLesL+lkeLqqLeqqLe+slk+iRs+K++l++e+i+elqkke++lqeenkaL+k+l
  Pahal.E04561.1  78 KALISAESESEGNWCHEYRKLKAKIETIQKCHKHLMGEDLESLNLKELQQLEQQLESSLKHIRSRKSHLMVESISELQKKERSLQEENKALQKEL 172
                     556667888899*********************************************************************************99 PP

           K-box  99 ee 100
                     +e
  Pahal.E04561.1 173 AE 174
                     86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.6E-42160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006632.66161IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.57E-34288IPR002100Transcription factor, MADS-box
CDDcd002655.09E-41276No hitNo description
PRINTSPR004041.8E-31323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003195.9E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004041.8E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004041.8E-313859IPR002100Transcription factor, MADS-box
PfamPF014869.7E-3184172IPR002487Transcription factor, K-box
PROSITE profilePS5129717.72388178IPR002487Transcription 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: 263 aa     Download sequence    Send to blast
MGRGKVQLKR IENKINRQVT FSKRRNGLLK KAHEISVLCD AEVGVIVFSP KGKLYEYATD  60
ESMDKILERY ERYSYAEKAL ISAESESEGN WCHEYRKLKA KIETIQKCHK HLMGEDLESL  120
NLKELQQLEQ QLESSLKHIR SRKSHLMVES ISELQKKERS LQEENKALQK ELAERQKAAA  180
SRQRQQVQQW DQHTQTSSSS SSFLMRQDQQ PLQPPQNICY PPVTMGERGE EAAAAAPQQP  240
GQVQPQLRIG GLPPWMISHL NA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A1e-22174173MEF2 CHIMERA
6byy_B1e-22174173MEF2 CHIMERA
6byy_C1e-22174173MEF2 CHIMERA
6byy_D1e-22174173MEF2 CHIMERA
6bz1_A1e-22174173MEF2 CHIMERA
6bz1_B1e-22174173MEF2 CHIMERA
6bz1_C1e-22174173MEF2 CHIMERA
6bz1_D1e-22174173MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankSBU321100.0U32110.1 Sorghum bicolor putative MADS box protein (SbMADS2) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025804249.10.0MADS-box transcription factor 15-like
SwissprotQ6Q9I21e-137MAD15_ORYSJ; MADS-box transcription factor 15
TrEMBLA0A2S3GV600.0A0A2S3GV60_9POAL; Uncharacterized protein
TrEMBLA0A2T7EK700.0A0A2T7EK70_9POAL; Uncharacterized protein
STRINGOB07G10630.11e-139(Oryza brachyantha)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP115137113
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G69120.16e-71MIKC_MADS family protein
Publications ? help Back to Top
  1. Cai Q, et al.
    [PAEs in composts of municipal sludge and rice straw].
    Ying Yong Sheng Tai Xue Bao, 2003. 14(11): p. 1993-6
    [PMID:14997664]
  2. Wang K, et al.
    DEP and AFO regulate reproductive habit in rice.
    PLoS Genet., 2010. 6(1): p. e1000818
    [PMID:20107517]
  3. Kobayashi K, et al.
    Inflorescence meristem identity in rice is specified by overlapping functions of three AP1/FUL-like MADS box genes and PAP2, a SEPALLATA MADS box gene.
    Plant Cell, 2012. 24(5): p. 1848-59
    [PMID:22570445]
  4. Ramanujam R,Yishi X,Liu H,Naqvi NI
    Structure-function analysis of Rgs1 in Magnaporthe oryzae: role of DEP domains in subcellular targeting.
    PLoS ONE, 2012. 7(7): p. e41084
    [PMID:22927898]
  5. Ang TN,Ngoh GC,Chua AS,Lee MG
    Elucidation of the effect of ionic liquid pretreatment on rice husk via structural analyses.
    Biotechnol Biofuels, 2012. 5(1): p. 67
    [PMID:22958710]
  6. Zhang G,Huang K,Jiang X,Huang D,Yang Y
    Acetylation of rice straw for thermoplastic applications.
    Carbohydr Polym, 2013. 96(1): p. 218-26
    [PMID:23688473]
  7. Wei X, et al.
    Fine mapping of BH1, a gene controlling lemma and palea development in rice.
    Plant Cell Rep., 2013. 32(9): p. 1455-63
    [PMID:23689259]
  8. Hu S, et al.
    A point mutation in the zinc finger motif of RID1/EHD2/OsID1 protein leads to outstanding yield-related traits in japonica rice variety Wuyunjing 7.
    Rice (N Y), 2013. 6(1): p. 24
    [PMID:24280027]
  9. Ji Y, et al.
    A comprehensive assessment of human exposure to phthalates from environmental media and food in Tianjin, China.
    J. Hazard. Mater., 2014. 279: p. 133-40
    [PMID:25051237]
  10. Huang Y, et al.
    Phthalates in Commercial Chinese Rice Wines: Concentrations and the Cumulative Risk Assessment to Adult Males in Shanghai.
    Biomed. Environ. Sci., 2014. 27(10): p. 819-23
    [PMID:25341819]
  11. Tamaki S, et al.
    FT-like proteins induce transposon silencing in the shoot apex during floral induction in rice.
    Proc. Natl. Acad. Sci. U.S.A., 2015. 112(8): p. E901-10
    [PMID:25675495]
  12. Wu F, et al.
    The ABCs of flower development: mutational analysis of AP1/FUL-like genes in rice provides evidence for a homeotic (A)-function in grasses.
    Plant J., 2017. 89(2): p. 310-324
    [PMID:27689766]