PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Pavir.5KG212400.1.p
Organism
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: 110aa    MW: 12736.5 Da    PI: 10.82
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5KG212400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF85.72.8e-271059251
                         ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         ri+n +nrqvtfskRr g++KKA EL +LCda+v +++fs tg+lye+ss
  Pavir.5KG212400.1.p 10 RIDNRTNRQVTFSKRRSGLMKKARELAILCDADVGLVVFSFTGRLYEFSS 59
                         9***********************************************96 PP

2K-box15.28.7e-07851091236
                K-box  12 akaeslqqelakLkkeienLqreqR 36 
                          ++a+ +q e+a L+++++nLq+++R
  Pavir.5KG212400.1.p  85 SEAKFWQMEVATLRQQVQNLQNNNR 109
                          6889*****************9987 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.202161IPR002100Transcription factor, MADS-box
SMARTSM004325.3E-38160IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.49E-32280IPR002100Transcription factor, MADS-box
CDDcd002653.83E-41271No hitNo description
PRINTSPR004043.7E-28323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003191.6E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004043.7E-282338IPR002100Transcription factor, MADS-box
PRINTSPR004043.7E-283859IPR002100Transcription 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: 110 aa     Download sequence    Send to blast
MGRGKIAIQR IDNRTNRQVT FSKRRSGLMK KARELAILCD ADVGLVVFSF TGRLYEFSSS  60
SMKTTIERYQ EAREENNCRF LNPISEAKFW QMEVATLRQQ VQNLQNNNR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A2e-22187187MEF2C
5f28_B2e-22187187MEF2C
5f28_C2e-22187187MEF2C
5f28_D2e-22187187MEF2C
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in seedling roots. {ECO:0000269|PubMed:14701936}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.5KG212400.1.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_004967658.19e-63MADS-box transcription factor 25 isoform X1
RefseqXP_022682316.19e-63MADS-box transcription factor 25 isoform X1
RefseqXP_022682317.17e-63MADS-box transcription factor 25 isoform X2
SwissprotQ84NC52e-61MAD25_ORYSJ; MADS-box transcription factor 25
TrEMBLA0A368R0W52e-61A0A368R0W5_SETIT; Uncharacterized protein
TrEMBLA0A368R1292e-61A0A368R129_SETIT; Uncharacterized protein
STRINGPavir.Ea01057.1.p2e-75(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
AT4G37940.17e-44AGAMOUS-like 21
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. Puig J, et al.
    Analysis of the expression of the AGL17-like clade of MADS-box transcription factors in rice.
    Gene Expr. Patterns, 2013 Jun-Jul. 13(5-6): p. 160-70
    [PMID:23466806]
  3. Yu C, et al.
    The effects of fluctuations in the nutrient supply on the expression of five members of the AGL17 clade of MADS-box genes in rice.
    PLoS ONE, 2014. 9(8): p. e105597
    [PMID:25140876]