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_00198.1_g00042.1
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: 219aa    MW: 25136.1 Da    PI: 9.1987
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00198.1_g00042.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF90.77.3e-29959151
                             S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                   SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                             krien + rqvtfskRr+g++KKA+ELSvLCda+va i+fs++gkly+++s
  Rsa1.0_00198.1_g00042.1  9 KRIENLTSRQVTFSKRRKGLFKKAHELSVLCDAQVAAIVFSKNGKLYDFAS 59
                             79***********************************************86 PP
2K-box553.6e-1983176999
                    K-box   9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqk...kekelqeen 91 
                              ++++  ++l++e+  + ++ie Lq   R+l+G+dL+s+s++eL+++ +++eksl+++Rs+K +l   +ie+l+    keke+ +e 
  Rsa1.0_00198.1_g00042.1  83 QKQQYVQELKNEMVIMMDKIELLQLHSRKLMGQDLDSCSVEELNEISTKIEKSLTNVRSRKAKLNEYKIEKLKAeiaKEKEVFNEG 168
                              6778889*****************999********************************************995444999999999 PP

                    K-box  92 kaLrkkle 99 
                                Lr+++e
  Rsa1.0_00198.1_g00042.1 169 SGLRQMFE 176
                              99999887 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.455161IPR002100Transcription factor, MADS-box
SMARTSM004322.8E-41160IPR002100Transcription factor, MADS-box
SuperFamilySSF554554.84E-31370IPR002100Transcription factor, MADS-box
PRINTSPR004043.1E-29323IPR002100Transcription factor, MADS-box
CDDcd002651.20E-39368No hitNo description
PfamPF003192.4E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004043.1E-292338IPR002100Transcription factor, MADS-box
PRINTSPR004043.1E-293859IPR002100Transcription factor, MADS-box
PfamPF014864.8E-1885175IPR002487Transcription factor, K-box
PROSITE profilePS5129711.68588181IPR002487Transcription 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: 219 aa     Download sequence    Send to blast
MVRGKIEIKR IENLTSRQVT FSKRRKGLFK KAHELSVLCD AQVAAIVFSK NGKLYDFASS  60
NMQKMIERCE IQRNEYTGAE NLQKQQYVQE LKNEMVIMMD KIELLQLHSR KLMGQDLDSC  120
SVEELNEIST KIEKSLTNVR SRKAKLNEYK IEKLKAEIAK EKEVFNEGSG LRQMFEAQSL  180
WMQSRSMKSE KSAPSCGCGN MNIADVETDL SIGLPENRV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A4e-17166166MEF2C
5f28_B4e-17166166MEF2C
5f28_C4e-17166166MEF2C
5f28_D4e-17166166MEF2C
6byy_A4e-17166166MEF2 CHIMERA
6byy_B4e-17166166MEF2 CHIMERA
6byy_C4e-17166166MEF2 CHIMERA
6byy_D4e-17166166MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtMADS-box transcription factor that acts with AGL42 and AGL71 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_00198.1_g00042.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2325423e-45AC232542.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH005L20, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009139222.11e-137PREDICTED: MADS-box protein AGL72-like
SwissprotQ9FLH52e-71AGL72_ARATH; MADS-box protein AGL72
TrEMBLA0A078IVV51e-135A0A078IVV5_BRANA; BnaA01g35210D protein
STRINGBo8g050720.11e-128(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM88051235
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G51860.22e-69MIKC_MADS family protein
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]