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.5KG736600.1.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 M-type_MADS
Protein Properties Length: 167aa    MW: 18593.6 Da    PI: 10.1901
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5KG736600.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF801.6e-251160251
                         ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         rie+k  rqv fskRr g++KKA+EL  LCdaeva+++fs+ gklyeyss
  Pavir.5KG736600.1.p 11 RIEDKASRQVRFSKRRSGLFKKAFELALLCDAEVALLVFSPAGKLYEYSS 60
                         8***********************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006628.987262IPR002100Transcription factor, MADS-box
SMARTSM004321.2E-32261IPR002100Transcription factor, MADS-box
CDDcd002655.48E-39379No hitNo description
SuperFamilySSF554552.49E-30485IPR002100Transcription factor, MADS-box
PRINTSPR004043.0E-27424IPR002100Transcription factor, MADS-box
PfamPF003194.7E-251158IPR002100Transcription factor, MADS-box
PRINTSPR004043.0E-272439IPR002100Transcription factor, MADS-box
PRINTSPR004043.0E-273960IPR002100Transcription factor, MADS-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 167 aa     Download sequence    Send to blast
MARRGRVELR RIEDKASRQV RFSKRRSGLF KKAFELALLC DAEVALLVFS PAGKLYEYSS  60
TSIEDTYERY QRFAGAGRNA NEGDQNNNDN QDAAASDLQS KLRQISTWSE RNNADKSDPN  120
ELEKLEKLLT NALRDTKTKK MLAKQNKGGA GASTSSQNSN GPTRQD*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3kov_A5e-18473271Myocyte-specific enhancer factor 2A
3kov_B5e-18473271Myocyte-specific enhancer factor 2A
3kov_I5e-18473271Myocyte-specific enhancer factor 2A
3kov_J5e-18473271Myocyte-specific enhancer factor 2A
3p57_A5e-18473271Myocyte-specific enhancer factor 2A
3p57_B5e-18473271Myocyte-specific enhancer factor 2A
3p57_C5e-18473271Myocyte-specific enhancer factor 2A
3p57_D5e-18473271Myocyte-specific enhancer factor 2A
3p57_I5e-18473271Myocyte-specific enhancer factor 2A
3p57_J5e-18473271Myocyte-specific enhancer factor 2A
5f28_A5e-18473372MEF2C
5f28_B5e-18473372MEF2C
5f28_C5e-18473372MEF2C
5f28_D5e-18473372MEF2C
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.5750.0callus| leaf| root
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Widely expressed. {ECO:0000269|PubMed:10382970}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the regulation of flowering time under short day (SD) conditions. Functions as promoter of flowering under SD conditions, upstream of EHD1, HD3A and MADS14, but downstream of GIGANTEA (GI). May transmit a SD promotion signal from GI to EHD1. Functions independently of MADS50 to control flowering time. {ECO:0000269|PubMed:17951465}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5KG736600.1.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_025815824.11e-114MADS-box transcription factor 51-like isoform X4
SwissprotQ9XJ619e-77MAD51_ORYSJ; MADS-box transcription factor 51
TrEMBLA0A2S3HNK51e-112A0A2S3HNK5_9POAL; Uncharacterized protein
STRINGPavir.J02739.1.p1e-117(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP12938398
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G22950.17e-30AGAMOUS-like 19
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. Kim SL,Lee S,Kim HJ,Nam HG,An G
    OsMADS51 is a short-day flowering promoter that functions upstream of Ehd1, OsMADS14, and Hd3a.
    Plant Physiol., 2007. 145(4): p. 1484-94
    [PMID:17951465]