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 Rsa1.0_01633.1_g00001.1
Organism
Raphanus sativus
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: 442aa    MW: 50441.4 Da    PI: 11.2381
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_01633.1_g00001.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B335.41.9e-112741894
                             --HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS.SEE..EE CS
                       B3 18 lpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr.sefelvv 94
                             +p +f++++g++++   ++ l +++grsW++ l    ++++ +l+ GW++F +ang++ g   +Fkl ++ s+ + +v
  Rsa1.0_01633.1_g00001.1  2 VPISFVRSNGLSNTY-CKIELLNKTGRSWKLSL--VHNKSGSYLRHGWRSFGSANGINGGRY-TFKL-WDlSRLQAYV 74
                             799******998655.59***************..444444579*************99885.8886.5556666665 PP
2B348.61.5e-15791552198
                              HH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
                       B3  21 kfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98 
                              +f++++g+ k +  +++l++ +g +W + l+ + + +++v+++GW+ F++ ngLk++D + Fkl+g +++++v++++ 
  Rsa1.0_01633.1_g00001.1  79 RFVNSNGLMKGRCCEMILKNDNGGTWCLVLRRNETNETTVISRGWRCFCQTNGLKVRDPFRFKLVG-TGEQPVLQLCP 155
                              79999999999999****************98888889***************************9.67778999886 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF023621.6E-9175IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.3E-9159IPR015300DNA-binding pseudobarrel domain
SMARTSM010190.033172IPR003340B3 DNA binding domain
CDDcd100178.22E-7155No hitNo description
SuperFamilySSF1019366.47E-9158IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086311.773184IPR003340B3 DNA binding domain
HamapMF_0051212.2322309IPR020924Ribosomal protein S6e, archaeal
Gene3DG3DSA:2.40.330.102.1E-1272155IPR015300DNA-binding pseudobarrel domain
SMARTSM010199.7E-1273157IPR003340B3 DNA binding domain
SuperFamilySSF1019361.39E-1476159IPR015300DNA-binding pseudobarrel domain
PfamPF023621.4E-1379156IPR003340B3 DNA binding domain
CDDcd100178.00E-1379155No hitNo description
PROSITE profilePS5086311.08293156IPR003340B3 DNA binding domain
SMARTSM014055.8E-80193320IPR001377Ribosomal protein S6e
PfamPF010924.8E-58193320IPR001377Ribosomal protein S6e
PROSITE patternPS005780244255IPR018282Ribosomal protein S6e, conserved site
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006412Biological Processtranslation
GO:0005840Cellular Componentribosome
GO:0003677Molecular FunctionDNA binding
GO:0003735Molecular Functionstructural constituent of ribosome
Sequence ? help Back to Top
Protein Sequence    Length: 442 aa     Download sequence    Send to blast
YVPISFVRSN GLSNTYCKIE LLNKTGRSWK LSLVHNKSGS YLRHGWRSFG SANGINGGRY  60
TFKLWDLSRL QAYVTMRWRF VNSNGLMKGR CCEMILKNDN GGTWCLVLRR NETNETTVIS  120
RGWRCFCQTN GLKVRDPFRF KLVGTGEQPV LQLCPAESNR NTRHVGYSEE NPKHRRLPSK  180
PSFSRGSSRL EKMKLNVANP TTGCQKKLEI DDDQKLRAIY DKRLSQEVSG DALGEEFKGY  240
VFKIMGGCDK QGFPMKQGVL TPGRVRLLLH RGTPCFRGHG RRTGERRRKS VRGCIVSQDL  300
SVLNLVIVKK GEKDLPGLTD TEKPRMRGPK RASKIRKLFN LTKDDDVRKY VNTYRRKFTN  360
KKGKEVSKAP KIQRLVTPLT LQRKRARIAD KKKRIAKANS DAAEYQKLLA SRLKEQRDKR  420
SESLAKKRSR LSSAAAKPSV TA
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4v7e_BG1e-151193434124240S ribosomal protein S6
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtMay play an important role in controlling cell growth and proliferation through the selective translation of particular classes of mRNA. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_01633.1_g00001.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankDQ2456280.0DQ245628.1 Zea mays clone 18533 mRNA sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018447208.11e-178PREDICTED: 40S ribosomal protein S6-1-like
SwissprotP514301e-166RS62_ARATH; 40S ribosomal protein S6-2
TrEMBLA0A078JG431e-174A0A078JG43_BRANA; 40S ribosomal protein S6
TrEMBLA0A397YBE21e-174A0A397YBE2_BRACM; 40S ribosomal protein S6
TrEMBLM4D1781e-174M4D178_BRARP; 40S ribosomal protein S6
STRINGBra010227.1-P1e-175(Brassica rapa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G26680.11e-35B3 family protein
Publications ? help Back to Top
  1. Barakat A, et al.
    The organization of cytoplasmic ribosomal protein genes in the Arabidopsis genome.
    Plant Physiol., 2001. 127(2): p. 398-415
    [PMID:11598216]
  2. Morimoto T,Suzuki Y,Yamaguchi I
    Effects of partial suppression of ribosomal protein S6 on organ formation in Arabidopsis thaliana.
    Biosci. Biotechnol. Biochem., 2002. 66(11): p. 2437-43
    [PMID:12506984]
  3. Wienkoop S, et al.
    Cell-specific protein profiling in Arabidopsis thaliana trichomes: identification of trichome-located proteins involved in sulfur metabolism and detoxification.
    Phytochemistry, 2004. 65(11): p. 1641-9
    [PMID:15276459]
  4. Mahfouz MM,Kim S,Delauney AJ,Verma DP
    Arabidopsis TARGET OF RAPAMYCIN interacts with RAPTOR, which regulates the activity of S6 kinase in response to osmotic stress signals.
    Plant Cell, 2006. 18(2): p. 477-90
    [PMID:16377759]
  5. Carroll AJ,Heazlewood JL,Ito J,Millar AH
    Analysis of the Arabidopsis cytosolic ribosome proteome provides detailed insights into its components and their post-translational modification.
    Mol. Cell Proteomics, 2008. 7(2): p. 347-69
    [PMID:17934214]
  6. Creff A,Sormani R,Desnos T
    The two Arabidopsis RPS6 genes, encoding for cytoplasmic ribosomal proteins S6, are functionally equivalent.
    Plant Mol. Biol., 2010. 73(4-5): p. 533-46
    [PMID:20437080]
  7. Turkina MV,Klang Årstrand H,Vener AV
    Differential phosphorylation of ribosomal proteins in Arabidopsis thaliana plants during day and night.
    PLoS ONE, 2011. 6(12): p. e29307
    [PMID:22195043]
  8. Černý M, et al.
    Proteome and metabolome profiling of cytokinin action in Arabidopsis identifying both distinct and similar responses to cytokinin down- and up-regulation.
    J. Exp. Bot., 2013. 64(14): p. 4193-206
    [PMID:24064926]
  9. Kim YK, et al.
    Ribosomal protein S6, a target of rapamycin, is involved in the regulation of rRNA genes by possible epigenetic changes in Arabidopsis.
    J. Biol. Chem., 2014. 289(7): p. 3901-12
    [PMID:24302738]
  10. Huang KC,Lin WC,Cheng WH
    Salt hypersensitive mutant 9, a nucleolar APUM23 protein, is essential for salt sensitivity in association with the ABA signaling pathway in Arabidopsis.
    BMC Plant Biol., 2018. 18(1): p. 40
    [PMID:29490615]
  11. Turck F,Kozma SC,Thomas G,Nagy F
    A heat-sensitive Arabidopsis thaliana kinase substitutes for human p70s6k function in vivo.
    Mol. Cell. Biol., 1998. 18(4): p. 2038-44
    [PMID:9528776]