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 XP_009131973.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family MYB
Protein Properties Length: 242aa    MW: 28027.6 Da    PI: 8.2048
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009131973.1genomeNCBIView 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-181057148
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     +g+WT++Ed+llv+ v+++G ++W+ +a+  g++Rt+k+c++rw +yl
   XP_009131973.1 10 KGPWTEQEDLLLVNFVHMFGDRRWDFVAKVSGLNRTGKSCRLRWVNYL 57
                     79********************************************97 PP
2Myb_DNA-binding56.56.4e-1863108148
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                      rg++T++E+ l +++++++G++ W++Iar+++ gRt++++k++w++++
   XP_009131973.1  63 RGKMTPQEEHLVLELHAKWGNR-WSKIARKLP-GRTDNEIKNYWRTHM 108
                      89********************.*********.************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129417.807157IPR017930Myb domain
SuperFamilySSF466897.11E-308104IPR009057Homeodomain-like
SMARTSM007179.5E-16959IPR001005SANT/Myb domain
PfamPF002495.6E-171057IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.609.4E-211164IPR009057Homeodomain-like
CDDcd001675.03E-111257No hitNo description
PROSITE profilePS5129427.45458112IPR017930Myb domain
SMARTSM007175.2E-1662110IPR001005SANT/Myb domain
PfamPF002491.9E-1663107IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.603.3E-2465111IPR009057Homeodomain-like
CDDcd001674.98E-1165108No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009723Biological Processresponse to ethylene
GO:0009739Biological Processresponse to gibberellin
GO:0009751Biological Processresponse to salicylic acid
GO:0009753Biological Processresponse to jasmonic acid
GO:0010200Biological Processresponse to chitin
GO:0046686Biological Processresponse to cadmium ion
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 242 aa     Download sequence    Send to blast
MKSVQEEYRK GPWTEQEDLL LVNFVHMFGD RRWDFVAKVS GLNRTGKSCR LRWVNYLHPG  60
LKRGKMTPQE EHLVLELHAK WGNRWSKIAR KLPGRTDNEI KNYWRTHMRK KAQEKKKRPM  120
SPTSSSSNCC SSSMTTAATQ DTGGTNGKMN QECEEDGYYS MDDIWREIDQ SGANIIKPVK  180
DIYYSEQSCY LDFPPLASPA WESSMESIWN MDADESKMSS FAIDQFPLSF EHGRSSSWSS  240
LL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1gv2_A1e-2771121105MYB PROTO-ONCOGENE PROTEIN
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bra.289792e-74leaf| root
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Mainly expressed in leaves and seedlings, and to a lower extent, in roots, stems and inflorescences. Isoform MYB59-1 and isoform MYB59-2 are present in roots, leaves, and seedlings, while the expression of isoform MYB59-3 and isoform MYB59-4 is confined to seedlings. {ECO:0000269|PubMed:16531467}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor. {ECO:0000305}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00600PBMTransfer from AT5G59780Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009131973.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Isoform MYB59-1 is induced by jasmonate (JA), salicylic acid (SA), gibberellic acid (GA), and ethylene. Also induced by cadmium (Cd). {ECO:0000269|PubMed:16463103, ECO:0000269|PubMed:16531467}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY5196410.0AY519641.1 Arabidopsis thaliana MYB transcription factor (At5g59780) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013682115.10.0transcription factor MYB59 isoform X1
RefseqXP_013715793.10.0transcription factor MYB59 isoform X1
RefseqXP_013715797.10.0transcription factor MYB59 isoform X1
SwissprotQ4JL841e-153MYB59_ARATH; Transcription factor MYB59
TrEMBLM4CR530.0M4CR53_BRARP; Uncharacterized protein
STRINGBra006694.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM25022774
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G59780.31e-148myb domain protein 59
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. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Nishida S,Kakei Y,Shimada Y,Fujiwara T
    Genome-wide analysis of specific alterations in transcript structure and accumulation caused by nutrient deficiencies in Arabidopsis thaliana.
    Plant J., 2017. 91(4): p. 741-753
    [PMID:28586097]
  4. Hickman R, et al.
    Architecture and Dynamics of the Jasmonic Acid Gene Regulatory Network.
    Plant Cell, 2017. 29(9): p. 2086-2105
    [PMID:28827376]