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 RrC3259_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: 379aa    MW: 41902.2 Da    PI: 5.8614
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC3259_p2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding58.41.6e-184186147
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47
                     +g+W+teEd  l ++v +lG+++W++Iar ++ gR++k+c++rw + 
       RrC3259_p2 41 KGPWSTEEDAVLTKLVSKLGPRNWSLIARGIP-GRSGKSCRLRWCNQ 86
                     79******************************.***********985 PP
2Myb_DNA-binding52.61.1e-1693137147
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                      r++++ eEd  ++ a++ +G++ W+ Ia+ ++ gRt++ +k++w++ 
       RrC3259_p2  93 RKPFSDEEDRMIISAHAIHGNK-WAVIAKLLP-GRTDNAIKNHWNST 137
                      789*******************.*********.***********986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129426.2533691IPR017930Myb domain
SuperFamilySSF466897.19E-3138134IPR009057Homeodomain-like
SMARTSM007174.6E-154089IPR001005SANT/Myb domain
PfamPF002497.0E-174186IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.0E-254294IPR009057Homeodomain-like
CDDcd001674.00E-144385No hitNo description
PROSITE profilePS5129422.03792142IPR017930Myb domain
SMARTSM007178.7E-1792140IPR001005SANT/Myb domain
PfamPF002495.6E-1593137IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.607.5E-2495141IPR009057Homeodomain-like
CDDcd001677.98E-1395138No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009651Biological Processresponse to salt stress
GO:0009723Biological Processresponse to ethylene
GO:0009733Biological Processresponse to auxin
GO:0009737Biological Processresponse to abscisic acid
GO:0009739Biological Processresponse to gibberellin
GO:0009751Biological Processresponse to salicylic acid
GO:0009753Biological Processresponse to jasmonic acid
GO:0005634Cellular Componentnucleus
GO:0005737Cellular Componentcytoplasm
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 379 aa     Download sequence    Send to blast
MDRSEPLPFP SSAFDSDEVI TVAAGDSSGG GGGYEMKSKV KGPWSTEEDA VLTKLVSKLG  60
PRNWSLIARG IPGRSGKSCR LRWCNQLDPC LKRKPFSDEE DRMIISAHAI HGNKWAVIAK  120
LLPGRTDNAI KNHWNSTLRR KYSDLWKNNS QCMAANQVTT AYIKNENVEQ GLPQEEIISP  180
PEAPQVVDAA MYDEPPTQVV DVTMDDASPD EPPQERVDHI EESSIPVFRP VARAGAFRVY  240
NPTNQRNGYR DHNVVPCEGP LIQAAKPDSL AGKFLQSLCG EPNIPSKCGH GCSTHPAESG  300
KSVLGAEFVD YEEPCPVFNQ ELISIATDLN NIAWIKSGLD NTIVREAEQS LKMDHISFND  360
PRIKFSGMMP RQHFFCARS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1mse_C2e-40401413104C-Myb DNA-Binding Domain
1msf_C2e-40401413104C-Myb DNA-Binding Domain
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtRequired for male gametophyte (pollen) development. {ECO:0000269|PubMed:22101548}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: May be the target of the microRNA (miRNA) MIR393a. {ECO:0000269|PubMed:15258262}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKF9747540.0KF974754.1 Brassica napus MYB transcription factor 109-1 (MYB109-1.1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018485570.10.0PREDICTED: myb-like protein AA
SwissprotO041921e-109MYB25_ARATH; Transcription factor MYB25
TrEMBLA0A397Y0P40.0A0A397Y0P4_BRACM; Uncharacterized protein
STRINGBo8g090160.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM56382747
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G55730.10.0myb domain protein 109
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]