PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Spipo20G0021000
Organism
Spirodela polyrhiza
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Alismatales; Araceae; Lemnoideae; Spirodela
Family MIKC_MADS
Protein Properties Length: 214aa    MW: 24507.3 Da    PI: 10.1478
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Spipo20G0021000genomeMIPS/IBISView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF84.46.9e-271059251
                     ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
           SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                     +ien+  rqvtfskRr g++KKAeEL +LCdaev vi++sstgkl+eyss
  Spipo20G0021000 10 KIENTAARQVTFSKRRRGLFKKAEELAILCDAEVGVIVVSSTGKLFEYSS 59
                     69**********************************************96 PP
2K-box40.41.3e-14961662494
            K-box  24 LkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaL 94 
                      L ke+++   ++R++ Ged++ L+l+eLq+Le++Le++l ++ ++K + ++e+++ +++k    ++++ +L
  Spipo20G0021000  96 LSKEVSESTLQLRKMNGEDIGGLTLEELQKLEKALETGLCRVLARKGQRMVEELKGSRQKSTLKEQKTDNL 166
                      666666667789************************************************99888887776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006629.03161IPR002100Transcription factor, MADS-box
SMARTSM004327.0E-37160IPR002100Transcription factor, MADS-box
CDDcd002653.13E-36277No hitNo description
PRINTSPR004045.1E-25323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
SuperFamilySSF554556.02E-30392IPR002100Transcription factor, MADS-box
PfamPF003192.4E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004045.1E-252338IPR002100Transcription factor, MADS-box
PRINTSPR004045.1E-253859IPR002100Transcription factor, MADS-box
PROSITE profilePS512979.93586178IPR002487Transcription factor, K-box
PfamPF014861.1E-1194166IPR002487Transcription 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: 214 aa     Download sequence    Send to blast
MAREKIKIRK IENTAARQVT FSKRRRGLFK KAEELAILCD AEVGVIVVSS TGKLFEYSSN  60
SMKETINRRN KHLRDDLESV PPSHELQLLD SIHEPLSKEV SESTLQLRKM NGEDIGGLTL  120
EELQKLEKAL ETGLCRVLAR KGQRMVEELK GSRQKSTLKE QKTDNLWLVG ISDLLPMWHF  180
WSEDQRKRPM TSRSLELTVV GHSREIASVS RTLL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A9e-17166166MEF2C
5f28_B9e-17166166MEF2C
5f28_C9e-17166166MEF2C
5f28_D9e-17166166MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtPutative transcription factor that coordinates gene expression underlying the differentiation of the pedicel abscission zone. May also be involved in the maintenance of the inflorescence meristem state.
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_020255900.12e-60MADS-box protein JOINTLESS
RefseqXP_020255901.12e-60MADS-box protein JOINTLESS
SwissprotQ9FUY62e-54JOIN_SOLLC; MADS-box protein JOINTLESS
TrEMBLA0A1D1YHQ02e-63A0A1D1YHQ0_9ARAE; MADS-box protein SVP
TrEMBLA0A1D1Z0G22e-63A0A1D1Z0G2_9ARAE; MADS-box protein SVP
STRINGXP_010277487.11e-57(Nelumbo nucifera)
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
AT2G22540.15e-43MIKC_MADS family protein
Publications ? help Back to Top
  1. Nakano T,Kato H,Shima Y,Ito Y
    Apple SVP Family MADS-Box Proteins and the Tomato Pedicel Abscission Zone Regulator JOINTLESS have Similar Molecular Activities.
    Plant Cell Physiol., 2015. 56(6): p. 1097-106
    [PMID:25746985]