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 RrC17819_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: 220aa    MW: 25534.8 Da    PI: 9.9687
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC17819_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF93.41e-29959151
                 S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
       SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                 k+ienk+ rq+tfskRrng++KKA+ELSvLCda+va i+fs++gklye+ss
  RrC17819_p1  9 KKIENKTSRQITFSKRRNGLFKKAHELSVLCDAQVAAIVFSQSGKLYEFSS 59
                 68***********************************************96 PP
2K-box56.11.7e-19901711696
        K-box  16 slqqelakLkkeienLq.reqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrk 96 
                  +l++e++ + k+i+ L+ ++  +l+G++L+s+sl eLq +e+q++ksl+ iRs+K +l+ +q+ +l+ ke+el +e ++Lr 
  RrC17819_p1  90 ELKKEIDIMVKKIDLLEvHQMLKLMGKGLGSCSLAELQDIETQIDKSLRIIRSRKADLYADQLLKLKDKERELLDERRRLRG 171
                  6899*************9999*********************************************************9985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006632.001161IPR002100Transcription factor, MADS-box
SMARTSM004326.1E-42160IPR002100Transcription factor, MADS-box
PRINTSPR004043.3E-30323IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.96E-33375IPR002100Transcription factor, MADS-box
CDDcd002651.33E-43375No hitNo description
PfamPF003191.5E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004043.3E-302338IPR002100Transcription factor, MADS-box
PRINTSPR004043.3E-303859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129711.49388180IPR002487Transcription factor, K-box
PfamPF014868.2E-1790170IPR002487Transcription 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: 220 aa     Download sequence    Send to blast
MVRGKIEIKK IENKTSRQIT FSKRRNGLFK KAHELSVLCD AQVAAIVFSQ SGKLYEFSSS  60
EMEKTIERYR KFSNDYFAPG RPQVELYMLE LKKEIDIMVK KIDLLEVHQM LKLMGKGLGS  120
CSLAELQDIE TQIDKSLRII RSRKADLYAD QLLKLKDKER ELLDERRRLR GEEIRETLVR  180
PMLPVTLHTE KNETIGACRT SKRSSEVETD LFIGLPATRL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A3e-19173173MEF2 CHIMERA
6byy_B3e-19173173MEF2 CHIMERA
6byy_C3e-19173173MEF2 CHIMERA
6byy_D3e-19173173MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtMADS-box transcription factor that acts with AGL42 and AGL72 in the control of flowering time. Promotes flowering at the shoot apical and axillary meristems. Seems to act through a gibberellin-dependent pathway. Interacts genetically with SOC1 and its expression is directly regulated by SOC1. {ECO:0000269|PubMed:21609362}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2324393e-85AC232439.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB003D07, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018475523.11e-139PREDICTED: MADS-box protein AGL71-like isoform X1
RefseqXP_018475524.11e-139PREDICTED: MADS-box protein AGL71-like isoform X2
SwissprotQ9LT931e-100AGL71_ARATH; MADS-box protein AGL71
TrEMBLA0A397ZUY71e-127A0A397ZUY7_BRACM; Uncharacterized protein
TrEMBLM4EK371e-127M4EK37_BRARP; Uncharacterized protein
STRINGBra029154.1-P1e-128(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM7828413
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G51870.34e-95AGAMOUS-like 71