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.1NG470300.2.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: 190aa    MW: 21365.6 Da    PI: 8.1353
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1NG470300.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF86.81.2e-27959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         krie+   rqvtfskRr g++KKAeELSvLCda+va+i+fsstgkl  ++s
  Pavir.1NG470300.2.p  9 KRIESAAARQVTFSKRRRGLFKKAEELSVLCDADVALIVFSSTGKLSQFAS 59
                         79*********************************************9986 PP
2K-box49.61.6e-17911551983
                K-box  19 qelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkk 83 
                           ++a L++++ +    +R++ Ge+Le Ls++eLqqLe++Le +l ++ ++K++ +leqi elq+k
  Pavir.1NG470300.2.p  91 SKYASLNEQLAEASLRLRQMRGEELEGLSVEELQQLEKNLEAGLHRVLQTKDQQFLEQIGELQRK 155
                          45666777777777899***********************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006628.623161IPR002100Transcription factor, MADS-box
SMARTSM004322.0E-36160IPR002100Transcription factor, MADS-box
CDDcd002651.47E-39275No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.75E-30374IPR002100Transcription factor, MADS-box
PRINTSPR004045.3E-25323IPR002100Transcription factor, MADS-box
PfamPF003191.2E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004045.3E-252338IPR002100Transcription factor, MADS-box
PRINTSPR004045.3E-253859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129710.93786169IPR002487Transcription factor, K-box
PfamPF014863.3E-1492155IPR002487Transcription 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: 190 aa     Download sequence    Send to blast
MARERREIKR IESAAARQVT FSKRRRGLFK KAEELSVLCD ADVALIVFSS TGKLSQFASS  60
SMNEIIDKYN THSKNLGKAE PPSLDLNLEH SKYASLNEQL AEASLRLRQM RGEELEGLSV  120
EELQQLEKNL EAGLHRVLQT KDQQFLEQIG ELQRKVWIHL FNVTCSCTNT IHPLSPIILV  180
VCGKLACCL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A1e-19173173MEF2C
5f28_B1e-19173173MEF2C
5f28_C1e-19173173MEF2C
5f28_D1e-19173173MEF2C
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.6290.0leaf| root| stem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in the L1 cell layer of the embryo 2 days after pollination. {ECO:0000269|PubMed:15682279}.
UniprotTISSUE SPECIFICITY: Expressed in palea and stamen primordia. {ECO:0000269|PubMed:15682279}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. May be required for spikelet (rice flower) development. {ECO:0000269|PubMed:15682279}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.1NG470300.2.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
GenBankAJ4306330.0AJ430633.1 Zea mays mRNA for putative MADS-domain transcription factor (m19 gene).
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025810223.11e-104MADS-box transcription factor 22
SwissprotQ9XJ661e-100MAD22_ORYSJ; MADS-box transcription factor 22
TrEMBLA0A3L6RPX91e-102A0A3L6RPX9_PANMI; MADS-box transcription factor 22
STRINGPavir.J13837.1.p1e-106(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G22540.15e-53MIKC_MADS family protein
Publications ? help Back to Top
  1. Lee S,Choi SC,An G
    Rice SVP-group MADS-box proteins, OsMADS22 and OsMADS55, are negative regulators of brassinosteroid responses.
    Plant J., 2008. 54(1): p. 93-105
    [PMID:18182025]
  2. Lee S,Jeong DH,An G
    A possible working mechanism for rice SVP-group MADS-box proteins as negative regulators of brassinosteroid responses.
    Plant Signal Behav, 2008. 3(7): p. 471-4
    [PMID:19704489]