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.3KG063200.1.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: 263aa    MW: 29625.9 Da    PI: 9.313
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.3KG063200.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF96.41.2e-30959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         krien++ rqvtf+kRrng+lKKA+ELSvLCdaeva+i+fss+g+lyeys+
  Pavir.3KG063200.1.p  9 KRIENNTSRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSSRGRLYEYSN 59
                         79***********************************************95 PP
2K-box100.32.7e-33821758100
                K-box   8 s.leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrk 96 
                            le + +++++qe+akL+++i++Lq+++Rhl+G+++e+LslkeL+qLe++Lek+++kiR++K+ell ++i+++ k+e elq+++++Lr+
  Pavir.3KG063200.1.p  82 PlLELNAQQYYKQESAKLRNQIQMLQNTNRHLVGDSVENLSLKELKQLESRLEKGISKIRARKSELLSAEINYMVKRETELQNDHMNLRT 171
                          45677889********************************************************************************** PP

                K-box  97 klee 100
                          k+ee
  Pavir.3KG063200.1.p 172 KIEE 175
                          **97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006633.543161IPR002100Transcription factor, MADS-box
SMARTSM004327.5E-41160IPR002100Transcription factor, MADS-box
CDDcd002651.21E-44278No hitNo description
SuperFamilySSF554551.44E-32275IPR002100Transcription factor, MADS-box
PRINTSPR004046.5E-32323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003191.6E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004046.5E-322338IPR002100Transcription factor, MADS-box
PRINTSPR004046.5E-323859IPR002100Transcription factor, MADS-box
PfamPF014864.0E-2487173IPR002487Transcription factor, K-box
PROSITE profilePS5129714.86189179IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048283Biological Processindeterminate inflorescence morphogenesis
GO:0048481Biological Processplant ovule development
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
MGRGRIEIKR IENNTSRQVT FCKRRNGLLK KAYELSVLCD AEVALIVFSS RGRLYEYSNN  60
SVKATIERYK KAHAVGSSSG APLLELNAQQ YYKQESAKLR NQIQMLQNTN RHLVGDSVEN  120
LSLKELKQLE SRLEKGISKI RARKSELLSA EINYMVKRET ELQNDHMNLR TKIEEGEQQL  180
QQVTVARSAA MAAASAELNP FLEMDTKCFF PAGPFAGLDM KCFFPGGLQM LEAHRQILTT  240
ELNLGYQLAP PSGDDINNPH QF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P2e-19169169Myocyte-specific enhancer factor 2B
1tqe_Q2e-19169169Myocyte-specific enhancer factor 2B
1tqe_R2e-19169169Myocyte-specific enhancer factor 2B
1tqe_S2e-19169169Myocyte-specific enhancer factor 2B
5f28_A3e-19169169MEF2C
5f28_B3e-19169169MEF2C
5f28_C3e-19169169MEF2C
5f28_D3e-19169169MEF2C
6c9l_A2e-19169169Myocyte-specific enhancer factor 2B
6c9l_B2e-19169169Myocyte-specific enhancer factor 2B
6c9l_C2e-19169169Myocyte-specific enhancer factor 2B
6c9l_D2e-19169169Myocyte-specific enhancer factor 2B
6c9l_E2e-19169169Myocyte-specific enhancer factor 2B
6c9l_F2e-19169169Myocyte-specific enhancer factor 2B
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.207881e-125stem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed during ovule development. First detected in the ovule primordia and later in the inner and outer integuments, nucellus tissue and the inner layer of the carpel wall. {ECO:0000269|PubMed:10528264}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.3KG063200.1.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
GenBankZMU315220.0U31522.1 Zea Mays MADS box protein (ZmOV23) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025807446.10.0MADS-box transcription factor 13-like
SwissprotQ2QW531e-125MAD13_ORYSJ; MADS-box transcription factor 13
TrEMBLA0A2T7E6180.0A0A2T7E618_9POAL; Uncharacterized protein
STRINGPavir.Cb01898.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP64937144
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G42830.12e-80MIKC_MADS family protein
Publications ? help Back to Top
  1. Gindullis F,Rose A,Patel S,Meier I
    Four signature motifs define the first class of structurally related large coiled-coil proteins in plants.
    BMC Genomics, 2002. 3: p. 9
    [PMID:11972898]
  2. 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]
  3. Yamaki S,Satoh H,Nagato Y
    Gypsy embryo specifies ovule curvature by regulating ovule/integument development in rice.
    Planta, 2005. 222(3): p. 408-17
    [PMID:16001259]
  4. Dreni L, et al.
    The D-lineage MADS-box gene OsMADS13 controls ovule identity in rice.
    Plant J., 2007. 52(4): p. 690-9
    [PMID:17877710]
  5. Yamaki S,Nagato Y,Kurata N,Nonomura K
    Ovule is a lateral organ finally differentiated from the terminating floral meristem in rice.
    Dev. Biol., 2011. 351(1): p. 208-16
    [PMID:21146515]
  6. Li H,Liang W,Yin C,Zhu L,Zhang D
    Genetic interaction of OsMADS3, DROOPING LEAF, and OsMADS13 in specifying rice floral organ identities and meristem determinacy.
    Plant Physiol., 2011. 156(1): p. 263-74
    [PMID:21444646]
  7. Li H, et al.
    Rice MADS6 interacts with the floral homeotic genes SUPERWOMAN1, MADS3, MADS58, MADS13, and DROOPING LEAF in specifying floral organ identities and meristem fate.
    Plant Cell, 2011. 23(7): p. 2536-52
    [PMID:21784949]