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 RrC5342_p1
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family MIKC_MADS
Protein Properties Length: 255aa    MW: 29972 Da    PI: 8.318
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC5342_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF97.17.4e-31959151
                S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
      SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                krienk+nrqvtfskRr+g+lKKA+E+SvLCdaeva+++fs++gkl+eys+
  RrC5342_p1  9 KRIENKINRQVTFSKRRAGLLKKAHEISVLCDAEVALVVFSHKGKLFEYST 59
                79***********************************************96 PP
2K-box106.62.8e-35791745100
       K-box   5 sgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100
                 +  + e+  + +++ e+++Lk++ie L+r+qRh+lGedL+ +s keLq+LeqqL+++lk+iRs+Kn+l++++++elq+kek++qe+n +L+k+++e
  RrC5342_p1  79 QLIAPESDVNTNWSMEYNRLKAKIELLERNQRHYLGEDLQAMSPKELQNLEQQLDTALKHIRSRKNQLMHDSVSELQRKEKAIQEQNSMLSKQIKE 174
                 555556667889*********************************************************************************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004323.8E-40160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006632.184161IPR002100Transcription factor, MADS-box
CDDcd002652.41E-42279No hitNo description
SuperFamilySSF554556.28E-34289IPR002100Transcription factor, MADS-box
PRINTSPR004048.4E-31323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003199.2E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004048.4E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004048.4E-313859IPR002100Transcription factor, MADS-box
PfamPF014863.1E-3085172IPR002487Transcription factor, K-box
PROSITE profilePS5129716.99488178IPR002487Transcription 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: 255 aa     Download sequence    Send to blast
MGRGRVQLKR IENKINRQVT FSKRRAGLLK KAHEISVLCD AEVALVVFSH KGKLFEYSTD  60
SCMEKILERY ERYSYAERQL IAPESDVNTN WSMEYNRLKA KIELLERNQR HYLGEDLQAM  120
SPKELQNLEQ QLDTALKHIR SRKNQLMHDS VSELQRKEKA IQEQNSMLSK QIKEREKVLR  180
AQQEQWDQQN HGQNLPPPPQ QHQIQHPYIL SHQPSPFLNM GGLYQEEDDP MAMRRNDLDL  240
SLEPVYNCNL GCFAS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A7e-22174173MEF2 CHIMERA
6byy_B7e-22174173MEF2 CHIMERA
6byy_C7e-22174173MEF2 CHIMERA
6byy_D7e-22174173MEF2 CHIMERA
6bz1_A7e-22174173MEF2 CHIMERA
6bz1_B7e-22174173MEF2 CHIMERA
6bz1_C7e-22174173MEF2 CHIMERA
6bz1_D7e-22174173MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that promotes early floral meristem identity in synergy with LEAFY. Displays a redundant function with CAULIFLOWER in the up-regulation of LEAFY. Required subsequently for the transition of an inflorescence meristem into a floral meristem, and for the normal development of sepals and petals in flowers. Regulates positively B class homeotic proteins (By similarity). {ECO:0000250}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ5058460.0AJ505846.1 Brassica oleracea var. botrytis mRNA for MADS-box protein AP1-c.
GenBankBOU674510.0U67451.1 Brassica oleracea homeotic protein boi1AP1 (Boi1AP1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009105460.11e-178PREDICTED: floral homeotic protein APETALA 1
RefseqXP_013652316.11e-178floral homeotic protein APETALA 1
SwissprotP0DI141e-179AP1_BRARP; Floral homeotic protein APETALA 1
TrEMBLA0A397YS551e-177A0A397YS55_BRACM; Uncharacterized protein
STRINGBostr.10273s0459.1.p1e-175(Boechera stricta)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM79225110
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G69120.11e-158MIKC_MADS family protein