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 RrC9242_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: 170aa    MW: 20092.2 Da    PI: 9.9343
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC9242_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF93.78.8e-30959151
                S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
      SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                k+ien + rqvtfskRrng+lKKA+ELSvLCda+v++i+fs++g+lye+ss
  RrC9242_p1  9 KKIENVTSRQVTFSKRRNGLLKKAYELSVLCDAQVSLIVFSQRGRLYEFSS 59
                68***********************************************96 PP
2K-box65.32.1e-2282170997
       K-box   9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkk 97 
                  +e   ++l+qe++ + ++ie L+  +R+llG++L+s+sl+eLq++  qL++sl ++R++K +l++eq+e+l+ kek+l een +L++k
  RrC9242_p1  82 DSEIYIQQLKQEASHMIAKIELLEFHKRKLLGQELSSCSLQELQEIDCQLQRSLGEVRARKAQLFKEQLEKLKAKEKQLLEENVQLHQK 170
                 45667899****************999***********************************************************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.931161IPR002100Transcription factor, MADS-box
SMARTSM004329.4E-40160IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.96E-32375IPR002100Transcription factor, MADS-box
CDDcd002651.15E-41378No hitNo description
PRINTSPR004046.0E-31323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003199.7E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004046.0E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004046.0E-313859IPR002100Transcription factor, MADS-box
PfamPF014861.3E-2287170IPR002487Transcription factor, K-box
PROSITE profilePS5129713.5187170IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009838Biological Processabscission
GO:0009909Biological Processregulation of flower development
GO:0010150Biological Processleaf senescence
GO:0080187Biological Processfloral organ senescence
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: 170 aa     Download sequence    Send to blast
MVRGKIQMKK IENVTSRQVT FSKRRNGLLK KAYELSVLCD AQVSLIVFSQ RGRLYEFSSS  60
GMQNTIERYR KYKNDYETSY QDSEIYIQQL KQEASHMIAK IELLEFHKRK LLGQELSSCS  120
LQELQEIDCQ LQRSLGEVRA RKAQLFKEQL EKLKAKEKQL LEENVQLHQK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P2e-19178178Myocyte-specific enhancer factor 2B
1tqe_Q2e-19178178Myocyte-specific enhancer factor 2B
1tqe_R2e-19178178Myocyte-specific enhancer factor 2B
1tqe_S2e-19178178Myocyte-specific enhancer factor 2B
6c9l_A2e-19178178Myocyte-specific enhancer factor 2B
6c9l_B2e-19178178Myocyte-specific enhancer factor 2B
6c9l_C2e-19178178Myocyte-specific enhancer factor 2B
6c9l_D2e-19178178Myocyte-specific enhancer factor 2B
6c9l_E2e-19178178Myocyte-specific enhancer factor 2B
6c9l_F2e-19178178Myocyte-specific enhancer factor 2B
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtMADS-box transcription factor that acts with AGL71 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 (PubMed:21609362). Plays a role in controlling flower organ senescence and abscission by repressing ethylene responses and regulating the expression of BOP2 and IDA (PubMed:21689171). {ECO:0000269|PubMed:21609362, ECO:0000269|PubMed:21689171}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00576DAPTransfer from AT5G62165Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0542201e-163AY054220.1 Arabidopsis thaliana At2g45660/F17K2.19 mRNA, complete cds.
GenBankAY0652061e-163AY065206.1 Arabidopsis thaliana unknown protein (At5g62165) mRNA, complete cds.
GenBankAY0660351e-163AY066035.1 Arabidopsis thaliana At2g45660/F17K2.19 mRNA, complete cds.
GenBankAY0965091e-163AY096509.1 Arabidopsis thaliana unknown protein (At5g62165) mRNA, complete cds.
GenBankAY1412131e-163AY141213.1 Arabidopsis thaliana MADS-box protein AGL42 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018455079.11e-117PREDICTED: MADS-box protein AGL42-like
SwissprotQ9FIS11e-102AGL42_ARATH; MADS-box protein AGL42
TrEMBLA0A078FVH41e-107A0A078FVH4_BRANA; BnaA09g05900D protein
TrEMBLA0A3P5Y8H81e-107A0A3P5Y8H8_BRACM; Uncharacterized protein
TrEMBLM4F4A71e-106M4F4A7_BRARP; Uncharacterized protein
STRINGBra035907.1-P1e-107(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
AT5G62165.31e-85AGAMOUS-like 42