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 RrC3144_p4
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 B3
Protein Properties Length: 223aa    MW: 25430.1 Da    PI: 10.2353
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC3144_p4genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B331.62.9e-10126188265
                 EEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTH CS
          B3   2 fkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGW 65 
                 f +l+++++l+++ l+lp + ++++g+   + ++++l d   +sW++ l+++k+s+++++++G+
  RrC3144_p4 126 FVALVTASSLRTDKLYLPQHVTSSNGLTR-KCRKIVLVDGGEKSWTLDLSFNKSSETFYMSRGT 188
                 567999*******************9985.567****************************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM010190.038175IPR003340B3 DNA binding domain
SuperFamilySSF1019361.1E-6161IPR015300DNA-binding pseudobarrel domain
CDDcd100173.32E-7167No hitNo description
PROSITE profilePS5086310.828187IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.102.5E-7261IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.1E-9117187IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019365.89E-10120188IPR015300DNA-binding pseudobarrel domain
CDDcd100172.82E-9125196No hitNo description
PROSITE profilePS508637.175125223IPR003340B3 DNA binding domain
PfamPF023621.0E-8126188IPR003340B3 DNA binding domain
SMARTSM010190.0015126217IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 223 aa     Download sequence    Send to blast
MIPEDFFSKY IEEEGGVSVT AELKSDAPDR TWKAKMTGRR LGDGWREFAV ANNLRFGGIL  60
SVSFEYFFFV IVKSDKTLLK KRLYPRTQVD RDDEDDIELP RNKKLKMKSP EAEEPFSSSS  120
SDNSCFVALV TASSLRTDKL YLPQHVTSSN GLTRKCRKIV LVDGGEKSWT LDLSFNKSSE  180
TFYMSRGTVR KLARGNLFPQ NLAAKMNTYK ARAVKRIAAQ WIR
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018433753.11e-101PREDICTED: B3 domain-containing protein REM13-like
SwissprotP0CAP54e-47REM13_ARATH; B3 domain-containing protein REM13
TrEMBLA0A0D3DVL74e-86A0A0D3DVL7_BRAOL; Uncharacterized protein
STRINGBo8g099680.17e-87(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM137801326
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G24650.19e-49DNA binding;DNA binding;sequence-specific DNA binding transcription factors
Publications ? help Back to Top
  1. Bindschedler LV,Palmblad M,Cramer R
    Hydroponic isotope labelling of entire plants (HILEP) for quantitative plant proteomics; an oxidative stress case study.
    Phytochemistry, 2008. 69(10): p. 1962-72
    [PMID:18538804]
  2. Mantegazza O, et al.
    Analysis of the arabidopsis REM gene family predicts functions during flower development.
    Ann. Bot., 2014. 114(7): p. 1507-15
    [PMID:25002525]