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 RrC4408_p1
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: 322aa    MW: 36706.1 Da    PI: 5.3969
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC4408_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding44.53.5e-141461148
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     +g+WT eEd++l++ +   G  +W++ ++  g+ R++k+c++rw +yl
       RrC4408_p1 14 KGPWTVEEDKKLINFILTNGHCCWRALPKLSGLLRCGKSCRLRWINYL 61
                     79******************************99************97 PP
2Myb_DNA-binding51.81.9e-1671111547
                      -HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
  Myb_DNA-binding   5 TteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                      ++ E++  +d+++qlG++ W++Ia++++ gRt++++k++w+++
       RrC4408_p1  71 SEYEEQMVIDLHAQLGNR-WSKIASHLP-GRTDNEIKNHWNTH 111
                      777***************.*********.************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.601.8E-19562IPR009057Homeodomain-like
PROSITE profilePS5129412.534961IPR017930Myb domain
SuperFamilySSF466898.24E-2711108IPR009057Homeodomain-like
SMARTSM007174.2E-111363IPR001005SANT/Myb domain
PfamPF002491.6E-121461IPR001005SANT/Myb domain
CDDcd001675.15E-81661No hitNo description
PROSITE profilePS5129426.27262116IPR017930Myb domain
Gene3DG3DSA:1.10.10.601.4E-2463117IPR009057Homeodomain-like
SMARTSM007172.3E-1466114IPR001005SANT/Myb domain
PfamPF002496.1E-1471111IPR001005SANT/Myb domain
CDDcd001677.09E-1174112No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009737Biological Processresponse to abscisic acid
GO:2000652Biological Processregulation of secondary cell wall biogenesis
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 322 aa     Download sequence    Send to blast
MGRQPCCDKV GLKKGPWTVE EDKKLINFIL TNGHCCWRAL PKLSGLLRCG KSCRLRWINY  60
LRPDLKRGFL SEYEEQMVID LHAQLGNRWS KIASHLPGRT DNEIKNHWNT HIKKKLKKMG  120
IDPMTHKPLL EGSQQQAQGI KKSLVPHDEK NTNQEDQQTK KEEEQQYQLG KDLEKNNTPI  180
STDDGFCIDE VPLLNPHEIF VDISSAHHHT SDDNANFNIS NSTSPSSSTS SCISSVPSDE  240
FSKFLDEIEI VDIKWLSSDD SSRDNINYND AKFNDNVDTM NLWDINDLSS LELFMNDHDD  300
SLVGSGCSRM VINQDSLTFD IL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A2e-27121165108B-MYB
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that acts as positive regulator of abscisic acid (ABA) signaling in response to salt stress. Acts as negative regulator ABI1, ABI2 and PP2CA, which are protein phosphatases 2C acting as negative regulator of ABA signaling. Binds to the DNA specific sequence and core element 5'-ACGT-3' found in the promoters of ABI1 and PP2CA to negatively regulate their expression during ABA-dependent salt stress response. {ECO:0000269|PubMed:23660402}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00513DAPTransfer from AT5G16600Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by salt stress, drought stress and abscisic acid (ABA). Down-regulated by salicylic acid (SA) methyl jasmonate (JA). {ECO:0000269|PubMed:23660402}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKF9747510.0KF974751.1 Brassica napus MYB transcription factor 43-1 (MYB43-1.1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018470215.10.0PREDICTED: protein ODORANT1-like
SwissprotQ9C7U72e-90MYB20_ARATH; Transcription factor MYB20
TrEMBLA0A0D3AJD60.0A0A0D3AJD6_BRAOL; Uncharacterized protein
STRINGBo2g013190.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM4282646
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G16600.11e-154myb domain protein 43
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]