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 RrC5279_p2
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: 246aa    MW: 29048.4 Da    PI: 6.3171
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC5279_p2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding56.66.1e-181158148
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     rg+W +eEde+lv+ v++lG ++W++ ar  g++R++k+c++rw +yl
       RrC5279_p2 11 RGPWLEEEDERLVKFVTLLGERRWDSLARVSGLKRSGKSCRLRWMNYL 58
                     89********************************************97 PP
2Myb_DNA-binding50.84e-1664108147
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                      rg++++eE+ ++ ++++ +G++ W++Iar+++ gRt++++k++++++
       RrC5279_p2  64 RGPMSQEEETIIFQLHAFWGNK-WSKIARRLP-GRTDNEVKNYYRTH 108
                      89********************.*********.************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129424.094662IPR017930Myb domain
SuperFamilySSF466896.36E-279105IPR009057Homeodomain-like
SMARTSM007171.1E-131060IPR001005SANT/Myb domain
PfamPF002491.6E-141158IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.604.1E-201265IPR009057Homeodomain-like
CDDcd001674.37E-91358No hitNo description
PROSITE profilePS5129418.72163113IPR017930Myb domain
SMARTSM007179.9E-1663111IPR001005SANT/Myb domain
PfamPF002495.0E-1464108IPR001005SANT/Myb domain
CDDcd001671.82E-966109No hitNo description
Gene3DG3DSA:1.10.10.609.3E-2466113IPR009057Homeodomain-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010200Biological Processresponse to chitin
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 246 aa     Download sequence    Send to blast
MDYKKEGTLR RGPWLEEEDE RLVKFVTLLG ERRWDSLARV SGLKRSGKSC RLRWMNYLNP  60
NLKRGPMSQE EETIIFQLHA FWGNKWSKIA RRLPGRTDNE VKNYYRTHFR KKMEAQNYDK  120
IIDCSRNTGG DLLCKYKETE IITWARTTTQ EHGFDKTVKE SKQINMESDK ETNGGIFERE  180
SFGVMKSPYE NRISDWISEI STDQSDTNLL EDRTSSSSEN NIDINIGSSW FEETRDFEEF  240
SCSLWS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1gv2_A4e-2891132105MYB PROTO-ONCOGENE PROTEIN
1h88_C2e-27911356159MYB PROTO-ONCOGENE PROTEIN
1h89_C2e-27911356159MYB PROTO-ONCOGENE PROTEIN
1h8a_C8e-28911325128MYB TRANSFORMING PROTEIN
1mse_C5e-2891132105C-Myb DNA-Binding Domain
1msf_C5e-2891132105C-Myb DNA-Binding Domain
Search in ModeBase
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00406DAPTransfer from AT3G53200Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Accumulates in etiolated seedlings in dark conditions. {ECO:0000269|PubMed:9839469}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1892691e-150AC189269.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB023B16, complete sequence.
GenBankAC1895021e-150AC189502.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB087M20, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018490352.11e-178PREDICTED: transcription factor MYB23
SwissprotQ9SCP11e-131MYB27_ARATH; Transcription factor MYB27
TrEMBLA0A397Y2H61e-158A0A397Y2H6_BRACM; Uncharacterized protein
STRINGBo8g082570.11e-157(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM113972533
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G53200.11e-126myb domain protein 27
Publications ? help Back to Top
  1. Albert NW, et al.
    A conserved network of transcriptional activators and repressors regulates anthocyanin pigmentation in eudicots.
    Plant Cell, 2014. 26(3): p. 962-80
    [PMID:24642943]