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 Rsa1.0_02176.1_g00006.1
Organism
Raphanus sativus
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: 208aa    MW: 24517.4 Da    PI: 10.0251
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_02176.1_g00006.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF94.26.1e-30959151
                             S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                   SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                             k+ien + rqvtfskRrng+lKKA+ELSvLCda+v++i+fs++g+lye+ss
  Rsa1.0_02176.1_g00006.1  9 KKIENATSRQVTFSKRRNGLLKKAYELSVLCDAQVSLIVFSQRGRLYEFSS 59
                             68***********************************************96 PP
2K-box51.35.1e-181251853797
                    K-box  37 hllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkk 97 
                              +llG++L+s+sl+eLq++  qL++sl ++R++K +l++eq+e+l+ kek+l een +L++k
  Rsa1.0_02176.1_g00006.1 125 KLLGQELSSCSLQELQEIDCQLQRSLGEVRARKAQLFKEQLEKLKAKEKQLLEENVQLHQK 185
                              79*********************************************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006632.254161IPR002100Transcription factor, MADS-box
SMARTSM004327.5E-41160IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
CDDcd002654.52E-42378No hitNo description
PRINTSPR004045.2E-31323IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.16E-32374IPR002100Transcription factor, MADS-box
PfamPF003195.9E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004045.2E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004045.2E-313859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129711.79587201IPR002487Transcription factor, K-box
PfamPF014862.0E-16125185IPR002487Transcription 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: 208 aa     Download sequence    Send to blast
MVRGKIEMKK IENATSRQVT FSKRRNGLLK KAYELSVLCD AQVSLIVFSQ RGRLYEFSSS  60
GMQNTIERYR KYKNDYETSY QDSEIYIQQL KQEASHMIAK IELLEFHKRK KSKLAFVVNV  120
CIYMKLLGQE LSSCSLQELQ EIDCQLQRSL GEVRARKAQL FKEQLEKLKA KEKQLLEENV  180
QLHQKNVIDS WRGSIDQQKK FRVIDLNL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P1e-18178178Myocyte-specific enhancer factor 2B
1tqe_Q1e-18178178Myocyte-specific enhancer factor 2B
1tqe_R1e-18178178Myocyte-specific enhancer factor 2B
1tqe_S1e-18178178Myocyte-specific enhancer factor 2B
6c9l_A1e-18178178Myocyte-specific enhancer factor 2B
6c9l_B1e-18178178Myocyte-specific enhancer factor 2B
6c9l_C1e-18178178Myocyte-specific enhancer factor 2B
6c9l_D1e-18178178Myocyte-specific enhancer factor 2B
6c9l_E1e-18178178Myocyte-specific enhancer factor 2B
6c9l_F1e-18178178Myocyte-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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_02176.1_g00006.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2283681e-115AK228368.1 Arabidopsis thaliana mRNA for hypothetical protein, complete cds, clone: RAFL14-79-M10.
GenBankAK3186671e-115AK318667.1 Arabidopsis thaliana AT5G62165 mRNA, complete cds, clone: RAFL05-05-D12.
GenBankAY0542201e-115AY054220.1 Arabidopsis thaliana At2g45660/F17K2.19 mRNA, complete cds.
GenBankAY0652061e-115AY065206.1 Arabidopsis thaliana unknown protein (At5g62165) mRNA, complete cds.
GenBankAY0660351e-115AY066035.1 Arabidopsis thaliana At2g45660/F17K2.19 mRNA, complete cds.
GenBankAY0965091e-115AY096509.1 Arabidopsis thaliana unknown protein (At5g62165) mRNA, complete cds.
GenBankAY1412131e-115AY141213.1 Arabidopsis thaliana MADS-box protein AGL42 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018455079.11e-132PREDICTED: MADS-box protein AGL42-like
SwissprotQ9FIS11e-110AGL42_ARATH; MADS-box protein AGL42
TrEMBLA0A078FVH41e-122A0A078FVH4_BRANA; BnaA09g05900D protein
TrEMBLA0A3P5Y8H81e-122A0A3P5Y8H8_BRACM; Uncharacterized protein
TrEMBLM4F4A71e-121M4F4A7_BRARP; Uncharacterized protein
STRINGBra035907.1-P1e-122(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
AT5G62165.32e-94AGAMOUS-like 42