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.5KG212100.1.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: 230aa    MW: 25815.3 Da    PI: 8.4843
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5KG212100.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF82.42.9e-261059251
                         ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         ri+n +nrqvtfskRr g++KKA EL +LCda+v +++fs  g+lye+ss
  Pavir.5KG212100.1.p 10 RIDNRTNRQVTFSKRRSGLMKKARELAILCDADVGLVVFSCAGRLYEFSS 59
                         9***********************************************96 PP
2K-box80.53.9e-27851711298
                K-box  12 akaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                          ++a+ +q e+a L+++++ Lq+++R+l+Ge+L+ L++++Lq L++q+e sl+++R+kK++ll e+i +l kk   lq+en +L+k++
  Pavir.5KG212100.1.p  85 SEAKFWQMEVATLRQQVQDLQNNNRKLMGEELSGLTIRDLQFLQSQIEMSLQSVRKKKEQLLAEEIMQLNKKGIVLQKENVELTKEV 171
                          6889*******************************************************************************9987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004322.7E-37160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006630.978161IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.96E-31278IPR002100Transcription factor, MADS-box
CDDcd002655.77E-41271No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004041.9E-27323IPR002100Transcription factor, MADS-box
PfamPF003191.9E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004041.9E-272338IPR002100Transcription factor, MADS-box
PRINTSPR004041.9E-273859IPR002100Transcription factor, MADS-box
PfamPF014861.9E-2485171IPR002487Transcription factor, K-box
PROSITE profilePS5129713.9587177IPR002487Transcription 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: 230 aa     Download sequence    Send to blast
MGRGKIAIQR IDNRTNRQVT FSKRRSGLMK KARELAILCD ADVGLVVFSC AGRLYEFSSS  60
SMKTVIERYQ EAREENNCPL LNPISEAKFW QMEVATLRQQ VQDLQNNNRK LMGEELSGLT  120
IRDLQFLQSQ IEMSLQSVRK KKEQLLAEEI MQLNKKGIVL QKENVELTKE VSIAHQHKIE  180
LQKKLSGEST SGDGDQASGS SNKVPGRSTA HDASEHVNLA LSIERDADE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P3e-21176176Myocyte-specific enhancer factor 2B
1tqe_Q3e-21176176Myocyte-specific enhancer factor 2B
1tqe_R3e-21176176Myocyte-specific enhancer factor 2B
1tqe_S3e-21176176Myocyte-specific enhancer factor 2B
6c9l_A3e-21176176Myocyte-specific enhancer factor 2B
6c9l_B3e-21176176Myocyte-specific enhancer factor 2B
6c9l_C3e-21176176Myocyte-specific enhancer factor 2B
6c9l_D3e-21176176Myocyte-specific enhancer factor 2B
6c9l_E3e-21176176Myocyte-specific enhancer factor 2B
6c9l_F3e-21176176Myocyte-specific enhancer factor 2B
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in seedling roots. {ECO:0000269|PubMed:14701936}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5KG212100.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025817983.11e-140MADS-box transcription factor 25-like
SwissprotQ84NC51e-103MAD25_ORYSJ; MADS-box transcription factor 25
TrEMBLA0A2S3HW571e-138A0A2S3HW57_9POAL; Uncharacterized protein
TrEMBLA0A368R0W51e-138A0A368R0W5_SETIT; Uncharacterized protein
STRINGPavir.J07457.1.p1e-167(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP61435130
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G57230.15e-78AGAMOUS-like 16
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. Puig J, et al.
    Analysis of the expression of the AGL17-like clade of MADS-box transcription factors in rice.
    Gene Expr. Patterns, 2013 Jun-Jul. 13(5-6): p. 160-70
    [PMID:23466806]
  3. Yu C, et al.
    The effects of fluctuations in the nutrient supply on the expression of five members of the AGL17 clade of MADS-box genes in rice.
    PLoS ONE, 2014. 9(8): p. e105597
    [PMID:25140876]