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.1NG470600.1.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: 229aa    MW: 25427.5 Da    PI: 5.2279
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1NG470600.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF86.41.6e-27959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         krie+   rqvtfskRr g++KKAeELSvLCda+va+i+fsstgkl  ++s
  Pavir.1NG470600.1.p  9 KRIESAAARQVTFSKRRRGLFKKAEELSVLCDADVALIVFSSTGKLSQFAS 59
                         79*********************************************9986 PP
2K-box59.21.7e-20911711999
                K-box  19 qelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                           ++a+L++++ +    +R++ Ge+Le Ls++eLqqLe++Le +l ++ ++K++ +leqi+elq+k  +l een++Lr+++ 
  Pavir.1NG470600.1.p  91 SKYANLNEQLAEASLRLRQMRGEELEGLSVEELQQLEKNLEAGLHRVLQTKDQQFLEQISELQRKSSQLAEENTQLRNQVS 171
                          45677777777777899************************************************************9985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004323.1E-36160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006628.245161IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004048.0E-25323IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.22E-29374IPR002100Transcription factor, MADS-box
CDDcd002657.42E-38375No hitNo description
PfamPF003191.7E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004048.0E-252338IPR002100Transcription factor, MADS-box
PRINTSPR004048.0E-253859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129714.10186176IPR002487Transcription factor, K-box
PfamPF014866.2E-1892170IPR002487Transcription 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: 229 aa     Download sequence    Send to blast
MVRERREIKR IESAAARQVT FSKRRRGLFK KAEELSVLCD ADVALIVFSS TGKLSQFASS  60
SMNEIIAKYN THSKNLGKEE PPSLDLNLEH SKYANLNEQL AEASLRLRQM RGEELEGLSV  120
EELQQLEKNL EAGLHRVLQT KDQQFLEQIS ELQRKSSQLA EENTQLRNQV SQISPSGKQA  180
VADTENVIVE DGQSSESVMT ALHSGSSQDN DDGSDVSLKL GLPCVAWK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A6e-20173173MEF2C
5f28_B6e-20173173MEF2C
5f28_C6e-20173173MEF2C
5f28_D6e-20173173MEF2C
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.1NG470600.1.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
GenBankAJ4306330.0AJ430633.1 Zea mays mRNA for putative MADS-domain transcription factor (m19 gene).
GenBankBT0354200.0BT035420.1 Zea mays full-length cDNA clone ZM_BFb0060F04 mRNA, complete cds.
GenBankKJ7269230.0KJ726923.1 Zea mays clone pUT3468 MADS transcription factor (MADS73) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004953998.11e-156MADS-box transcription factor 22
SwissprotQ9XJ661e-143MAD22_ORYSJ; MADS-box transcription factor 22
TrEMBLA0A368PU141e-155A0A368PU14_SETIT; Uncharacterized protein
STRINGPavir.Aa00556.1.p1e-165(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP12213697
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G22540.14e-64MIKC_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]