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_04683.1_g00003.1
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: 369aa    MW: 41482.2 Da    PI: 8.9357
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_04683.1_g00003.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP1283.6e-40152228177
                              --SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS
                      SBP   1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 
                              +Cq++gC+ dls+ak+yhr+h+vCe hsk+p+v+v g+e+rfCqqCsrfh++sefDe+krsCr+rL++hn+rrrk+q
  Rsa1.0_04683.1_g00003.1 152 RCQIDGCQLDLSSAKDYHRKHRVCENHSKCPKVTVGGVERRFCQQCSRFHAVSEFDETKRSCRKRLSHHNARRRKPQ 228
                              6**************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.101.0E-32145214IPR004333Transcription factor, SBP-box
PROSITE profilePS5114132.171150227IPR004333Transcription factor, SBP-box
SuperFamilySSF1036123.27E-37151228IPR004333Transcription factor, SBP-box
PfamPF031109.0E-31153226IPR004333Transcription 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: 369 aa     Download sequence    Send to blast
MRSPFLWDLE HLILPNPVND KDQLTTTTEW ETDKGEGIES ILPCFNGLER VSSLWDTPVS  60
KSSQSTSTNS SSPQPKQRML ASETSQVKAP PTALEASPES DLSLKLGKRT YSEELWGGRN  120
NNNNNDISAV SVKLLTRKKS KASCGQSMQV PRCQIDGCQL DLSSAKDYHR KHRVCENHSK  180
CPKVTVGGVE RRFCQQCSRF HAVSEFDETK RSCRKRLSHH NARRRKPQGV FPFNPDRVYD  240
GRQHANMLWN GLSLNTRSEE KFAWDNTYDT KPTKTESSGF TLSFQRGNGS EQQMFASNNH  300
SFSAYQTSAG KPKFQLHGQG GVGEYSGVLH ESQDFHRALS LLSTSSDPMM VQPHTQPFSL  360
LFSYDGVPK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A1e-251532261184squamosa promoter binding protein-like 4
Search in ModeBase
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_04683.1_g00003.1
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
GenBankAK3533921e-173AK353392.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-42-E20.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018492233.10.0PREDICTED: squamosa promoter-binding-like protein 11 isoform X1
SwissprotQ9FZK01e-171SPL11_ARATH; Squamosa promoter-binding-like protein 11
TrEMBLA0A397YJ760.0A0A397YJ76_BRACM; Uncharacterized protein
STRINGBra030040.1-P0.0(Brassica rapa)
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-163squamosa 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]