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_04786.1_g00005.1
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 SBP
Protein Properties Length: 357aa    MW: 39672.3 Da    PI: 8.7148
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_04786.1_g00005.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP124.25.5e-39166242177
                              --SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS
                      SBP   1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 
                              +Cqv+gCe dls+ak+yhr+h+vCe+hsk+p+v+vsg+e+rfCqqCsr h++sefD +krsCr+rL++hn+rrrk+q
  Rsa1.0_04786.1_g00005.1 166 RCQVDGCELDLSSAKDYHRKHRVCETHSKCPKVTVSGVERRFCQQCSRLHAVSEFDGKKRSCRKRLSHHNARRRKSQ 242
                              6**************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.106.9E-33159228IPR004333Transcription factor, SBP-box
PROSITE profilePS5114131.342164241IPR004333Transcription factor, SBP-box
SuperFamilySSF1036122.62E-36165242IPR004333Transcription factor, SBP-box
PfamPF031107.1E-31167240IPR004333Transcription factor, SBP-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 357 aa     Download sequence    Send to blast
MDCNLRSPLV WDWENLIISN PSKTEHDKKQ LTNTTASEWE IESLFPCFDG LQRVSNDSTT  60
TTSFWHNTAV SKSSESISAN SASSSPITRQ TKPASESSPC SNIDFVQVKT SSAALEVPAE  120
SSDLCLKLGK PTYSGRDSND VSTKLLAPCR KKSKSCGQSS SMQVPRCQVD GCELDLSSAK  180
DYHRKHRVCE THSKCPKVTV SGVERRFCQQ CSRLHAVSEF DGKKRSCRKR LSHHNARRRK  240
SQGVFPLNPE RVVYDQKFAW GTTYDTKPTQ METGFTLSFQ RGNGSEEEQL FASTNHPLSA  300
YQTSAGKNKF HLDVGEYSGV LHQSHRAFSL LSTSSAPLVH PHAQPLSLLF SFDGLPK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A1e-25157240184squamosa promoter binding protein-like 4
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1222239KKRSCRKRLSHHNARRRK
Functional Description ? help Back to Top
Source Description
UniProtTrans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_04786.1_g00005.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Negatively regulated by microRNAs miR156 and miR157. {ECO:0000305|PubMed:12202040}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ0116372e-94AJ011637.1 Arabidopsis thaliana (ecotype Columbia) mRNA for squamosa promoter binding protein-like 10.
GenBankAY0748532e-94AY074853.1 Arabidopsis thaliana At1g27370/F17L21_16 mRNA, complete cds.
GenBankAY1420282e-94AY142028.1 Arabidopsis thaliana At1g27370/F17L21_16 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018438726.10.0PREDICTED: squamosa promoter-binding-like protein 11
SwissprotQ9FZK01e-141SPL11_ARATH; Squamosa promoter-binding-like protein 11
TrEMBLA0A078GQJ00.0A0A078GQJ0_BRANA; BnaA09g27960D protein
STRINGBo5g051970.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM50041653
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G27360.41e-140squamosa promoter-like 11
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. Stief A, et al.
    Arabidopsis miR156 Regulates Tolerance to Recurring Environmental Stress through SPL Transcription Factors.
    Plant Cell, 2014. 26(4): p. 1792-1807
    [PMID:24769482]
  3. Liu J, et al.
    The RhoGAP SPIN6 associates with SPL11 and OsRac1 and negatively regulates programmed cell death and innate immunity in rice.
    PLoS Pathog., 2015. 11(2): p. e1004629
    [PMID:25658451]
  4. Xu M, et al.
    Developmental Functions of miR156-Regulated SQUAMOSA PROMOTER BINDING PROTEIN-LIKE (SPL) Genes in Arabidopsis thaliana.
    PLoS Genet., 2016. 12(8): p. e1006263
    [PMID:27541584]