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_02545.1_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 SBP
Protein Properties Length: 340aa    MW: 37091 Da    PI: 6.9267
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_02545.1_g00001.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP130.75e-4197174178
                              --SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS
                      SBP   1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 
                              +C v+gC++d+s+++eyh+rhkvC+vhsk+pvv+++g++qrfCqqCsrfh l+efDe+k+sCr+rL++hn+rrrk+q+
  Rsa1.0_02545.1_g00001.1  97 VCLVDGCDSDFSNCREYHKRHKVCDVHSKTPVVTINGHKQRFCQQCSRFHGLEEFDEGKKSCRKRLDGHNRRRRKPQP 174
                              6**************************************************************************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.101.3E-3190159IPR004333Transcription factor, SBP-box
PROSITE profilePS5114131.64195172IPR004333Transcription factor, SBP-box
SuperFamilySSF1036121.7E-3896177IPR004333Transcription factor, SBP-box
PfamPF031107.9E-3098171IPR004333Transcription factor, SBP-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0048653Biological Processanther development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 340 aa     Download sequence    Send to blast
MDWNFKPSSG YFSEFDQESV PDITPTDASI SFGGSSSPPK GDFSFDLKLG RNIGNSSAFG  60
NTEQVISLGK LKESAPEASR SSSGSSKRTR GNNQIPVCLV DGCDSDFSNC REYHKRHKVC  120
DVHSKTPVVT INGHKQRFCQ QCSRFHGLEE FDEGKKSCRK RLDGHNRRRR KPQPDHIGRH  180
ATFFQGSKLL DFSSSPHMFP TTTSVGSPSW GNGLVSVDMA NGSSYGQNQS YAGSCPAKTD  240
IMFPVSSSPI SRGKQFPFLQ EEEDCSRMTS CVHDSDCALS LLSSSSSSVP HLLQPPLSLS  300
QEAVETVFYG SGLFENASAV SDGSGNEAVA LPQTFPFHWE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A5e-2891171484squamosa promoter binding protein-like 4
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1154171KKSCRKRLDGHNRRRRKP
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00555DAPTransfer from AT5G50570Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_02545.1_g00001.1
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
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1174751e-103AK117475.1 Arabidopsis thaliana At5g50670 mRNA for unknown protein, complete cds, clone: RAFL17-08-M12.
GenBankAY0846091e-103AY084609.1 Arabidopsis thaliana clone 113229 mRNA, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018473041.10.0PREDICTED: squamosa promoter-binding-like protein 13A
RefseqXP_018473042.10.0PREDICTED: squamosa promoter-binding-like protein 13A
SwissprotB9DI201e-178SP13A_ARATH; Squamosa promoter-binding-like protein 13A
SwissprotP0DI111e-178SP13B_ARATH; Squamosa promoter-binding-like protein 13B
TrEMBLS4WVY80.0S4WVY8_ARAAL; SQUAMOSA promoter binding protein-like protein 13
STRINGBra022766.1-P0.0(Brassica rapa)
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-163SBP 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]