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 RrC5270_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: 361aa    MW: 40613.2 Da    PI: 5.88
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC5270_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding47.83.2e-151462148
                     TSSS-HHHHHHHHHHHHHTTTT.-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGgg.tWktIartmgkgRtlkqcksrwqkyl 48
                     +g+W++eEd +l+d+++  G+g +W + ++++g++R++k+c++rw++yl
       RrC5270_p1 14 KGPWSPEEDAKLKDYIENSGTGgNWIALPQKIGLRRCGKSCRLRWLNYL 62
                     79*********************************************97 PP
2Myb_DNA-binding38.52.6e-1269111246
                      SSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
  Myb_DNA-binding   2 grWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                      g +++eEd ++ ++    G++ W+ Ia+ ++ gRt++++k++w++
       RrC5270_p1  69 GGFSEEEDNIICNLYVTIGSR-WSIIAAQLP-GRTDNDIKNYWNT 111
                      569******************.*********.***********97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129412.624962IPR017930Myb domain
SuperFamilySSF466899.8E-2611109IPR009057Homeodomain-like
SMARTSM007177.9E-111364IPR001005SANT/Myb domain
PfamPF002494.5E-141462IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.2E-231569IPR009057Homeodomain-like
CDDcd001671.89E-71662No hitNo description
PROSITE profilePS5129421.38563117IPR017930Myb domain
SMARTSM007172.2E-1167115IPR001005SANT/Myb domain
PfamPF002496.3E-1169111IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.0E-2370117IPR009057Homeodomain-like
CDDcd001677.02E-871113No 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: 361 aa     Download sequence    Send to blast
MGRAPCCDKA NVKKGPWSPE EDAKLKDYIE NSGTGGNWIA LPQKIGLRRC GKSCRLRWLN  60
YLRPNIKHGG FSEEEDNIIC NLYVTIGSRW SIIAAQLPGR TDNDIKNYWN TRLKKKLLNK  120
QRKEFQEARM KQEMVMMKRQ QQVQNGSTDL HLKNMFGSSP WPLLQQLPHH QAPLVMMEPT  180
NCNYYQTSPS CNLEQKQPIA LNNMVKIEEE PERTNPDHHQ HQDSITNPFD VSFSQLLLDP  240
YYYLGSGEGG GEGDFAIMSS STNSPLPNTS GDQNEHQQQE IFQWFGSSNL QTEASSDMFL  300
NNNIANLETN KDTKFYSSLA GSGAALAGGT TSTSADQSTI SWEDITSLVN SEDASYFNGP  360
N
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A1e-23141177108B-MYB
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator (By similarity). Positively regulates axillary meristems (AMs) formation and development, especially during inflorescence. {ECO:0000250, ECO:0000269|PubMed:16461581}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2274720.0AK227472.1 Arabidopsis thaliana mRNA for transcription factor like protein, complete cds, clone: RAFL14-10-M08.
GenBankAY5196470.0AY519647.1 Arabidopsis thaliana MYB transcription factor (At5g65790) mRNA, complete cds.
GenBankBT0059940.0BT005994.1 Arabidopsis thaliana At5g65790 gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018455646.10.0PREDICTED: transcription factor RAX3
SwissprotQ9M2Y91e-129RAX3_ARATH; Transcription factor RAX3
TrEMBLA0A397Y1X80.0A0A397Y1X8_BRACM; Uncharacterized protein
STRINGBo9g018910.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM29412568
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G65790.11e-176myb domain protein 68
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. Guo D, et al.
    The WRKY Transcription Factor WRKY71/EXB1 Controls Shoot Branching by Transcriptionally Regulating RAX Genes in Arabidopsis.
    Plant Cell, 2015. 27(11): p. 3112-27
    [PMID:26578700]
  3. Pal S, et al.
    TransDetect Identifies a New Regulatory Module Controlling Phosphate Accumulation.
    Plant Physiol., 2017. 175(2): p. 916-926
    [PMID:28827455]