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 Pavir.4KG066600.1.p
Organism
Panicum virgatum
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: 228aa    MW: 26102.7 Da    PI: 7.8702
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.4KG066600.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF94.16.2e-30959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         krienk+ rqvtf+kRrng+lKKA+ELSvLCdaeva+iifss+g+l+e+s+
  Pavir.4KG066600.1.p  9 KRIENKISRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSSRGRLFEFST 59
                         79***********************************************96 PP
2K-box98.31.1e-328617313100
                K-box  13 kaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100
                           + + +qe+ kLk +ie Lq++qR+llGedL++Ls+keL+qLe+q+e slk+iRs Kn+ +l+q+ el++ke++lq+ nk+Lr+k++e
  Pavir.4KG066600.1.p  86 AELNNYQEYLKLKTRIEFLQTTQRNLLGEDLGPLSIKELEQLENQIEISLKHIRSSKNQQMLDQLFELKRKEQQLQDSNKDLRRKIQE 173
                          455789********************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.8E-40160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006633.207161IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.7E-31275IPR002100Transcription factor, MADS-box
CDDcd002651.33E-40278No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004048.0E-32323IPR002100Transcription factor, MADS-box
PfamPF003191.4E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004048.0E-322338IPR002100Transcription factor, MADS-box
PRINTSPR004048.0E-323859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129716.14387177IPR002487Transcription factor, K-box
PfamPF014861.2E-2788172IPR002487Transcription 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: 228 aa     Download sequence    Send to blast
MGRGKVELKR IENKISRQVT FAKRRNGLLK KAYELSVLCD AEVALIIFSS RGRLFEFSTS  60
SCMYKTLERY RICNFASEAS SAPIEAELNN YQEYLKLKTR IEFLQTTQRN LLGEDLGPLS  120
IKELEQLENQ IEISLKHIRS SKNQQMLDQL FELKRKEQQL QDSNKDLRRK IQEISEENVL  180
RLTCQDLGPS GSSGHGDDSS QELLRTAVCD PSLHIGYQAY IDHLGKE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ox0_A1e-24791719101Developmental protein SEPALLATA 3
4ox0_B1e-24791719101Developmental protein SEPALLATA 3
4ox0_C1e-24791719101Developmental protein SEPALLATA 3
4ox0_D1e-24791719101Developmental protein SEPALLATA 3
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in anthers. Weakly expressed in carpels. {ECO:0000269|PubMed:9085264}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
UniProtProbable transcription factor. May be involved in the control of flowering time. {ECO:0000269|PubMed:16217607, ECO:0000269|PubMed:9085264, ECO:0000269|Ref.8}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.4KG066600.1.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
GenBankAY8274730.0AY827473.1 Pennisetum glaucum MADS box transcription factor mRNA, partial cds.
GenBankJN6615970.0JN661597.1 Cenchrus americanus MADS5-like protein (OSM5) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004964768.11e-154MADS-box transcription factor 5
SwissprotA2Y9P01e-132MADS5_ORYSI; MADS-box transcription factor 5
SwissprotQ0DEB81e-132MADS5_ORYSJ; MADS-box transcription factor 5
TrEMBLA0A3L6S2X71e-157A0A3L6S2X7_PANMI; MADS-box transcription factor 5-like
STRINGSi007226m1e-154(Setaria italica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP22213264
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G24260.15e-73MIKC_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. 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]