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_00158.1_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: 349aa    MW: 38097.3 Da    PI: 7.4346
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00158.1_g00005.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP131.23.7e-41106182278
                              -SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS
                      SBP   2 CqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 
                              C v+gC++d+s+++eyh+rhkvC+vhsk+pvv+++g +qrfCqqCsrfh+l+efDe+krsCr+rL++hn+rrrk+q+
  Rsa1.0_00158.1_g00005.1 106 CLVDGCDSDFSKCREYHKRHKVCDVHSKTPVVTINGDKQRFCQQCSRFHALEEFDEGKRSCRKRLDGHNRRRRKPQP 182
                              **************************************************************************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.109.7E-3399167IPR004333Transcription factor, SBP-box
PROSITE profilePS5114131.718103180IPR004333Transcription factor, SBP-box
SuperFamilySSF1036123.14E-38104184IPR004333Transcription factor, SBP-box
PfamPF031104.5E-30106179IPR004333Transcription 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: 349 aa     Download sequence    Send to blast
MDWNFKLSSG SFPDYEEESV SDLTPIDALV SFGGSSSSPK GEFSFDLKLG RNIVNSSSAF  60
GNTEQVTCLK WKESTTALAK PEASRRSGST KRTRGNATGN NQIPLCLVDG CDSDFSKCRE  120
YHKRHKVCDV HSKTPVVTIN GDKQRFCQQC SRFHALEEFD EGKRSCRKRL DGHNRRRRKP  180
QPDQGRKLLE FPSASHVFPT TSVGTPSSWG NGLVSVAMAN GSSYGENQIS YAVSSPAKPG  240
SMFPDSSSLN SRGKQFPFLQ EEVSSRTAFL CERMTSCVHD SDCALSLLSP SSSSTPHLLQ  300
PPLPLSQEAV ETGFNQSGLF ENASAVSDGS VISGNEIGAL PQTFPFHWE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A5e-2997179284squamosa promoter binding protein-like 4
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1162179KRSCRKRLDGHNRRRRKP
Functional Description ? help Back to Top
Source Description
UniProtTrans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'. {ECO:0000250}.
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_00158.1_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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018473029.10.0PREDICTED: squamosa promoter-binding-like protein 13A
RefseqXP_018473030.10.0PREDICTED: squamosa promoter-binding-like protein 13A
RefseqXP_018473031.10.0PREDICTED: squamosa promoter-binding-like protein 13A
RefseqXP_018473229.10.0PREDICTED: squamosa promoter-binding-like protein 13A
RefseqXP_018473230.10.0PREDICTED: squamosa promoter-binding-like protein 13A
SwissprotB9DI201e-170SP13A_ARATH; Squamosa promoter-binding-like protein 13A
SwissprotP0DI111e-170SP13B_ARATH; Squamosa promoter-binding-like protein 13B
TrEMBLS4WVY80.0S4WVY8_ARAAL; SQUAMOSA promoter binding protein-like protein 13
STRINGBo3g042890.11e-178(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM41112759
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G50670.11e-160SBP family protein
Publications ? help Back to Top
  1. Jorgensen SA,Preston JC
    Differential SPL gene expression patterns reveal candidate genes underlying flowering time and architectural differences in Mimulus and Arabidopsis.
    Mol. Phylogenet. Evol., 2014. 73: p. 129-39
    [PMID:24508602]
  2. 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]