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_00864.1_g00005.1
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: 226aa    MW: 25700.8 Da    PI: 8.4203
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00864.1_g00005.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF823.8e-26957149
                             S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS
                   SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49
                             krien   rqvtf+kRr+g+lKKA+ELSvLCdae+ v+ifs++gkl+e 
  Rsa1.0_00864.1_g00005.1  9 KRIENPVHRQVTFCKRRTGLLKKAKELSVLCDAEIGVVIFSPQGKLFEL 57
                             79********************************************996 PP
2K-box45.14.2e-16981661785
                    K-box  17 lqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkek 85 
                               + e++ Lk+eie+Lq+ +R + G + ++++l+eL  Le++Le  +++iRs K+e++l++i+ l++k  
  Rsa1.0_00864.1_g00005.1  98 PKDEVNVLKREIEMLQKGIRYMFGGGDGTMNLEELLLLEKHLEYWISQIRSAKMEIMLQEIQSLRNKVS 166
                              5789*************************************************************9975 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF554557.85E-29176IPR002100Transcription factor, MADS-box
PROSITE profilePS5006629.885161IPR002100Transcription factor, MADS-box
SMARTSM004328.0E-37160IPR002100Transcription factor, MADS-box
CDDcd002651.24E-39278No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-27323IPR002100Transcription factor, MADS-box
PfamPF003195.3E-241056IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-272338IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-273859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129712.52795200IPR002487Transcription factor, K-box
PfamPF014865.0E-1798193IPR002487Transcription 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: 226 aa     Download sequence    Send to blast
MARGKIQLKR IENPVHRQVT FCKRRTGLLK KAKELSVLCD AEIGVVIFSP QGKLFELATK  60
GTMDGIIDKY MKCTGGGRGS SSAIFTAQEQ LQPANLEPKD EVNVLKREIE MLQKGIRYMF  120
GGGDGTMNLE ELLLLEKHLE YWISQIRSAK MEIMLQEIQS LRNKVSTYNI TVYSALYQLE  180
GVLKNANKYL LEKIEENNNS ILDANFTTVD TNYSYPLTMP SELFQF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A5e-17170169MEF2C
5f28_B5e-17170169MEF2C
5f28_C5e-17170169MEF2C
5f28_D5e-17170169MEF2C
6byy_A6e-17170169MEF2 CHIMERA
6byy_B6e-17170169MEF2 CHIMERA
6byy_C6e-17170169MEF2 CHIMERA
6byy_D6e-17170169MEF2 CHIMERA
6bz1_A5e-17170169MEF2 CHIMERA
6bz1_B5e-17170169MEF2 CHIMERA
6bz1_C5e-17170169MEF2 CHIMERA
6bz1_D5e-17170169MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription activator that regulates root development by controlling cell proliferation in root meristem. May mediate responses to auxin in the root. May act as promoter of the flowering transition through up-regulation of SOC, FT and LFY. {ECO:0000269|PubMed:18203871}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_00864.1_g00005.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin in root phloem. {ECO:0000269|PubMed:18203871}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKC9843020.0KC984302.2 Brassica oleracea var. viridis AGL12 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018468908.11e-141PREDICTED: agamous-like MADS-box protein AGL12
SwissprotQ388411e-132AGL12_ARATH; Agamous-like MADS-box protein AGL12
TrEMBLA0A398AAJ71e-138A0A398AAJ7_BRACM; Uncharacterized protein
STRINGBra007972.1-P1e-138(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM70522641
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G71692.11e-134AGAMOUS-like 12
Publications ? help Back to Top
  1. Zimmermann P,Hirsch-Hoffmann M,Hennig L,Gruissem W
    GENEVESTIGATOR. Arabidopsis microarray database and analysis toolbox.
    Plant Physiol., 2004. 136(1): p. 2621-32
    [PMID:15375207]
  2. Pacheco-Escobedo MA, et al.
    Longitudinal zonation pattern in Arabidopsis root tip defined by a multiple structural change algorithm.
    Ann. Bot., 2018.
    [PMID:27358290]
  3. García-Cruz KV, et al.
    The MADS-box XAANTAL1 increases proliferation at the Arabidopsis root stem-cell niche and participates in transition to differentiation by regulating cell-cycle components.
    Ann. Bot., 2018.
    [PMID:27474508]