PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID RrC117_p9
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: 289aa    MW: 33469.1 Da    PI: 5.2127
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC117_p9genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding45.71.6e-142067148
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     rg+WT eEd ll  ++   G g+W++ a++ g++Rt+k+c++rw++yl
        RrC117_p9 20 RGPWTLEEDTLLTTYILHNGEGRWNLAAKCAGLKRTGKSCRLRWLNYL 67
                     89********************************************97 PP
2Myb_DNA-binding51.91.8e-1673116146
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                      rg+ T++E++l+++++ ++G++ W++Ia++++ gRt++++k++w++
        RrC117_p9  73 RGNLTPQEQLLILELHSKWGNR-WSKIAQYLP-GRTDNEIKNYWRT 116
                      7999******************.*********.***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129413.0911567IPR017930Myb domain
SuperFamilySSF466891.61E-2918114IPR009057Homeodomain-like
SMARTSM007172.5E-111969IPR001005SANT/Myb domain
PfamPF002494.6E-132067IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.607.8E-212174IPR009057Homeodomain-like
CDDcd001673.05E-82267No hitNo description
PROSITE profilePS5129425.26468122IPR017930Myb domain
SMARTSM007171.4E-1472120IPR001005SANT/Myb domain
PfamPF002491.5E-1573116IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.607.7E-2375121IPR009057Homeodomain-like
CDDcd001674.20E-1177116No 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: 289 aa     Download sequence    Send to blast
MENSMKNKSF KESEEAELRR GPWTLEEDTL LTTYILHNGE GRWNLAAKCA GLKRTGKSCR  60
LRWLNYLKPD IRRGNLTPQE QLLILELHSK WGNRWSKIAQ YLPGRTDNEI KNYWRTRVQK  120
QARQLNIESN SDKFFDAVRS FWVPRLIEKM EQNSSTTYTC PQNNNNNNNN NSLLLPTQSF  180
ESMSTQTYTD FSCQNPCLSN MDGSSSSSAF MPDLTTVQHI TDHNTVIDGS MFNHEGNASQ  240
ELTGYIPGME EYYYTGNSDI STECQVAGAY ENVTQDPMWN MDDIWQFRE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1gv2_A1e-23171221105MYB PROTO-ONCOGENE PROTEIN
1h8a_C1e-2311221128MYB TRANSFORMING PROTEIN
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription repressor of phosphate (Pi) starvation-induced genes. Regulates negatively Pi starvation responses via the repression of gibberellic acid (GA) biosynthesis and signaling. Modulates root architecture, phosphatase activity, and Pi uptake and accumulation. {ECO:0000269|PubMed:19529828}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Slightly induced by salicylic acid (PubMed:16463103). Induced reversibly in response to phosphate (Pi) deficiency but repressed in the presence of Pi, specifically in the leaves. Availability of Pi increases with decreased levels (PubMed:19529828). {ECO:0000269|PubMed:16463103, ECO:0000269|PubMed:19529828}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKM9756550.0KM975655.1 Brassica napus MYB transcription factor 62.1 (MYB62.1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018457591.10.0PREDICTED: transcription factor MYB24
SwissprotQ9C9G71e-148MYB62_ARATH; Transcription factor MYB62
TrEMBLA0A3P6B5P21e-177A0A3P6B5P2_BRACM; Uncharacterized protein
STRINGBo6g106730.11e-177(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM26322571
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G68320.11e-150myb domain protein 62
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]