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 RrC10536_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: 354aa    MW: 40926.9 Da    PI: 7.4758
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC10536_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding50.16.2e-1696141147
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                      rg W + Ed +l+++v+ +G+ +W++Ia+++  gR++k+c++rw++ 
      RrC10536_p1  96 RGHWRPAEDVKLKELVAIYGPQNWNLIAEKLE-GRSGKSCRLRWFNQ 141
                      899*****************************.***********996 PP
2Myb_DNA-binding591.1e-18148191146
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                      r ++T+eE+e+l +a++++G++ W+ Iar ++ gRt++++k++w+ 
      RrC10536_p1 148 RRAFTEEEEERLMQAHRLYGNK-WAMIARLFP-GRTDNSVKNHWHV 191
                      678*******************.*********.***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129416.82291142IPR017930Myb domain
SMARTSM007174.8E-1495144IPR001005SANT/Myb domain
PfamPF002492.2E-1596141IPR001005SANT/Myb domain
SuperFamilySSF466892.36E-2896189IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.601.1E-2597149IPR009057Homeodomain-like
CDDcd001674.20E-1299140No hitNo description
PROSITE profilePS5129427.753143197IPR017930Myb domain
SMARTSM007174.1E-15147195IPR001005SANT/Myb domain
PfamPF002491.5E-15148190IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.8E-21150196IPR009057Homeodomain-like
CDDcd001672.12E-11150190No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010199Biological Processorgan boundary specification between lateral organs and the meristem
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 354 aa     Download sequence    Send to blast
MYMSGKQRWM DENEIAAVRR EVSSWDFPFN DINIQLHGRC NTGHEFDILK SPFGVNEEES  60
NNHNRNYSNS ESAKKETTDS GQSWSSSSSK QSVLGRGHWR PAEDVKLKEL VAIYGPQNWN  120
LIAEKLEGRS GKSCRLRWFN QLDPRINRRA FTEEEEERLM QAHRLYGNKW AMIARLFPGR  180
TDNSVKNHWH VIMARKYREH SSAYRRRKLV INNPLKPLLP NHPNPSPIYN SFISTKHYLT  240
QPYHEFNLTH QVVNNASVTT DHNQLVLPFH CFQGCERTEA SMVVSMFSNQ MMVGDNVGAT  300
SEALHNFPYV DSMSQEKGVP NEAMNLIGME VVDEEVAEKA RQQPYFFDFL GLGT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A1e-31941965107B-MYB
1h88_C6e-319419656158MYB PROTO-ONCOGENE PROTEIN
1h89_C6e-319419656158MYB PROTO-ONCOGENE PROTEIN
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_018486794.10.0PREDICTED: uncharacterized protein LOC108857316
SwissprotQ9LQX51e-179MY117_ARATH; Transcription factor MYB117
TrEMBLA0A078ILC50.0A0A078ILC5_BRANA; BnaC05g51000D protein
STRINGBo5g045110.10.0(Brassica oleracea)
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-174myb 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]