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_009120496.1
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: 237aa    MW: 27550.9 Da    PI: 8.6919
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009120496.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding54.23.3e-171057148
                     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_009120496.1 10 KGPWTEQEDILLVNFVHAFGDRRWDFVAKVSGLNRTGKSCRLRWVNYL 57
                     79********************************************97 PP
2Myb_DNA-binding52.79.7e-1763108148
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                      rg++T +E+ l +++++++G++ W++Ia++++ gRt++++k++w++++
   XP_009120496.1  63 RGKMTHQEERLVLELHAKWGNR-WSKIAKKLP-GRTDNEIKNYWRTHM 108
                      89********************.*********.************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129417.201157IPR017930Myb domain
SuperFamilySSF466891.8E-298104IPR009057Homeodomain-like
SMARTSM007173.3E-15959IPR001005SANT/Myb domain
PfamPF002494.5E-161057IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.3E-201164IPR009057Homeodomain-like
CDDcd001671.49E-101257No hitNo description
PROSITE profilePS5129427.32358112IPR017930Myb domain
SMARTSM007172.2E-1662110IPR001005SANT/Myb domain
PfamPF002491.1E-1563107IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.8E-2365111IPR009057Homeodomain-like
CDDcd001679.79E-1265108No 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: 237 aa     Download sequence    Send to blast
MKNVQEEYRK GPWTEQEDIL LVNFVHAFGD RRWDFVAKVS GLNRTGKSCR LRWVNYLHPG  60
LKRGKMTHQE ERLVLELHAK WGNRWSKIAK KLPGRTDNEI KNYWRTHMRK QAQEKKRPMS  120
PTSSSSNCCS SSMTQDTGGS NGKMNQECDD GNYSMDDIWR EIDQSGANII KPVKDIYYSE  180
QSCYFNFPPL PLASPTWESS LESTWNMDAY ESKMSSFAID QFPLSFEHAR SSWSSLV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1gv2_A2e-2871121105MYB PROTO-ONCOGENE PROTEIN
Search in ModeBase
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009120496.1
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
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKC9667400.0KC966740.1 Brassica napus MYB transcription factor 59 (MYB59.1) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009120496.11e-180PREDICTED: transcription factor MYB59 isoform X1
SwissprotQ4JL841e-147MYB59_ARATH; Transcription factor MYB59
TrEMBLM4CEA21e-179M4CEA2_BRARP; Uncharacterized protein
STRINGBra002533.1-P1e-180(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-143myb 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]