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.5KG679000.1.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: 265aa    MW: 29392.3 Da    PI: 9.229
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5KG679000.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF93.78.4e-30959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         krien++ rqvtf+kRrng+lKKA+ELS+LCdae+a++ifss+g+lyeyss
  Pavir.5KG679000.1.p  9 KRIENTTSRQVTFCKRRNGLLKKAYELSILCDAEIALVIFSSRGRLYEYSS 59
                         79***********************************************96 PP
2K-box101.51.1e-338417410100
                K-box  10 eeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                          + + + + qqe+akL ++i++Lq++++hl+Ge++++++ keL+++e++Le+++ +iRskK+e+ll++ie++qk+e elq+en+ Lr+k++
  Pavir.5KG679000.1.p  84 DVNSHLYFQQEAAKLHQQIQTLQNSNKHLMGESIGNMTAKELKSIESRLERGIGRIRSKKHEMLLAEIEYMQKREAELQSENMFLRAKVA 173
                          55678899********************************************************************************98 PP

                K-box 100 e 100
                          e
  Pavir.5KG679000.1.p 174 E 174
                          6 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006633.571161IPR002100Transcription factor, MADS-box
SMARTSM004322.1E-41160IPR002100Transcription factor, MADS-box
CDDcd002654.49E-46275No hitNo description
SuperFamilySSF554552.49E-32274IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004045.9E-32323IPR002100Transcription factor, MADS-box
PfamPF003197.6E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004045.9E-322338IPR002100Transcription factor, MADS-box
PRINTSPR004045.9E-323859IPR002100Transcription factor, MADS-box
PfamPF014867.7E-2686172IPR002487Transcription factor, K-box
PROSITE profilePS5129714.36888178IPR002487Transcription 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: 265 aa     Download sequence    Send to blast
MGRGKIEIKR IENTTSRQVT FCKRRNGLLK KAYELSILCD AEIALVIFSS RGRLYEYSSN  60
SVRSTIERYK KASASTSGTA PVIDVNSHLY FQQEAAKLHQ QIQTLQNSNK HLMGESIGNM  120
TAKELKSIES RLERGIGRIR SKKHEMLLAE IEYMQKREAE LQSENMFLRA KVAEAERAQQ  180
EAAEDQMAVA PPPDGAEVTT ELQALPPSLD PRGYYLQAQA SMLAAASTAS SSSSQHQQEH  240
HLQTALHLGY HIKVDTAAAS KGFL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P9e-21173173Myocyte-specific enhancer factor 2B
1tqe_Q9e-21173173Myocyte-specific enhancer factor 2B
1tqe_R9e-21173173Myocyte-specific enhancer factor 2B
1tqe_S9e-21173173Myocyte-specific enhancer factor 2B
5f28_A1e-20169169MEF2C
5f28_B1e-20169169MEF2C
5f28_C1e-20169169MEF2C
5f28_D1e-20169169MEF2C
6c9l_A9e-21173173Myocyte-specific enhancer factor 2B
6c9l_B9e-21173173Myocyte-specific enhancer factor 2B
6c9l_C9e-21173173Myocyte-specific enhancer factor 2B
6c9l_D9e-21173173Myocyte-specific enhancer factor 2B
6c9l_E9e-21173173Myocyte-specific enhancer factor 2B
6c9l_F9e-21173173Myocyte-specific enhancer factor 2B
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in developing seeds. {ECO:0000269|PubMed:14701936}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5KG679000.1.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
GenBankBT0621100.0BT062110.1 Zea mays full-length cDNA clone ZM_BFb0215E12 mRNA, complete cds.
GenBankKJ7269310.0KJ726931.1 Zea mays clone pUT3477 MADS transcription factor (MADS41) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025817347.11e-164MADS-box transcription factor 21-like
SwissprotQ8RU311e-128MAD21_ORYSJ; MADS-box transcription factor 21
TrEMBLA0A3L6SJC71e-172A0A3L6SJC7_PANMI; MADS-box transcription factor 21
STRINGSi002551m1e-160(Setaria italica)
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
AT2G42830.11e-86MIKC_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. 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]