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 RrC1954_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 MYB
Protein Properties Length: 338aa    MW: 38979.6 Da    PI: 7.8501
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC1954_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding521.6e-1684129147
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                      rg W + Ed +l+++v+ +G+ +W++Ia++++ gR++k+c++rw++ 
       RrC1954_p1  84 RGHWRPAEDMKLKELVAIYGPQNWNLIAEKLQ-GRSGKSCRLRWFNQ 129
                      899*****************************.***********996 PP
2Myb_DNA-binding57.33.5e-18136179146
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                      r ++T++E+e+l +a++++G++ W+ Iar ++ gRt++++k++w+ 
       RrC1954_p1 136 RRAFTEDEEERLMQAHRLYGNK-WAMIARLFP-GRTDNSVKNHWHV 179
                      678*******************.*********.***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129416.28279130IPR017930Myb domain
SMARTSM007172.0E-1483132IPR001005SANT/Myb domain
PfamPF002494.0E-1684129IPR001005SANT/Myb domain
SuperFamilySSF466891.65E-2884177IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.606.7E-2685137IPR009057Homeodomain-like
CDDcd001677.26E-1387128No hitNo description
PROSITE profilePS5129427.162131185IPR017930Myb domain
SMARTSM007171.6E-14135183IPR001005SANT/Myb domain
PfamPF002494.5E-15136178IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.606.9E-21138184IPR009057Homeodomain-like
CDDcd001673.14E-11138178No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 338 aa     Download sequence    Send to blast
MRSPPRGEKL LLGTSLSNDI NVQHHRRCNI SHEFDILKSP LGDNVEESNN HNPLYSNNES  60
GKKETTDSGQ SWSSSSSKPS VLGRGHWRPA EDMKLKELVA IYGPQNWNLI AEKLQGRSGK  120
SCRLRWFNQL DPRINRRAFT EDEEERLMQA HRLYGNKWAM IARLFPGRTD NSVKNHWHVI  180
MARKYREHSS AYRRRKLMIN NPLKPHLPNP NPNYHSFIST HHYFTQPIHE LNFTHHMVNN  240
ASITPDHNQL VLPINCFQGY ESNENPMVVS MFGNQIMGRD NVGAMSEGLY DFPYIDSTSH  300
EKGVSNEPMS WIGMEGEDEE EKAKQQPQFF DFLGLGTA
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A2e-31821845107B-MYB
1mse_C2e-31811841104C-Myb DNA-Binding Domain
1msf_C2e-31811841104C-Myb DNA-Binding Domain
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that involved in boundary specification, meristem initiation and maintenance, and organ patterning (PubMed:19542355, PubMed:21533201). Functions in both lateral organ separation and axillary meristem formation, in part through genetic interaction with the NAC domain genes CUC2 and CUC3 and the homeobox gene STM (PubMed:19542355). May be recruited by a variety of developmental programs for the development of floral organs and the initiation of ovule outgrowth (PubMed:21533201). {ECO:0000269|PubMed:19542355, ECO:0000269|PubMed:21533201}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF3348160.0AF334816.1 Arabidopsis thaliana putative transcription factor (MYB117) mRNA, complete cds.
GenBankAY5195590.0AY519559.1 Arabidopsis thaliana MYB transcription factor (At1g26780) mRNA, complete cds.
GenBankDQ4462910.0DQ446291.1 Arabidopsis thaliana clone pENTR221-At1g26780 myb family transcription factor (At1g26780) mRNA, complete cds.
GenBankDQ6528620.0DQ652862.1 Arabidopsis thaliana clone 0000017266_0000012084 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009110033.10.0PREDICTED: transcription factor MYB24-like
SwissprotQ9LQX51e-165MY117_ARATH; Transcription factor MYB117
TrEMBLA0A078IAW00.0A0A078IAW0_BRANA; BnaA08g19860D protein
TrEMBLA0A397YI050.0A0A397YI05_BRACM; Uncharacterized protein
TrEMBLM4DIF80.0M4DIF8_BRARP; Uncharacterized protein
STRINGBra016285.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM12102896
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G26780.21e-159myb domain protein 117
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]
  2. Colling J, et al.
    Hypersensitivity of Arabidopsis TAXIMIN1 overexpression lines to light stress is correlated with decreased sinapoyl malate abundance and countered by the antibiotic cefotaxime.
    Plant Signal Behav, 2016. 11(4): p. e1143998
    [PMID:26967827]